Q9HR87 - HALSA - GREMLIN Contacts

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Q9HR87 - Spermidine/putrescine-binding protein

UniProt:	Q9HR87	Sequences: MTDHTDLSRRQYVKTAALSAAATTALAGCMGGLDDGGDASTGDDGAWRDAELAAVPAAPDDRLYSADNTQSSGETIRHLTWSGYEAANVQRPFEKKFDCQTGVDLFTSNLDAFNRLDDGAWREFDHATFDMAWLPDLAEAGLIRPLDYEAWKPYTFDKYTDLFQRENGYEFAFLDEDYNFDADGQLYGVPQRFGWASFALNTDVVSESDARSYDAAWADEYDVGVYDLPFWGVQIVMLREGIDPYATHTDAEVERIREATVALFENAAGVYADVGSLNTALAAGDIDIAFVSGNWINGSLRRGGRFEYEARVPDEGGVIWVETTTMLKGSHPSVSTNYLAYMQHGITAKNLMWPTVGGTNVVPHQSSIDRLNRRQRTVLRIDDLQDIIDKSRFYTGVPDLDRLVSVWEDAKAEATG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	416 (339)
Sequences:	26418 (21387)
Seq/√Len:	1161.6

ECOLI - POTD POTF YDCS MALE YNJB UGPB YCJN THIB
BACSU - CYCB MDXE YTCQ ARAN YESO LIPO YURO MSME
HALSA - Q9HR87 Q9HP00 Q9HNZ3 Q9HHQ8 Q9HMT5 Q9HR04
SULSO - Q97YY1 Q97ZC3 Q97UZ1 Q97VC2 Q97UF5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
75_T	102_G	4.056	1.00
77_R	102_G	3.688	1.00
144_R	333_S	3.561	1.00
202_T	309_E	3.530	1.00
75_T	100_Q	3.181	1.00
145_P	185_Q	3.148	1.00
261_V	265_E	3.079	1.00
217_W	262_A	3.028	1.00
94_E	100_Q	2.721	1.00
212_S	215_A	2.657	1.00
99_C	334_V	2.651	1.00
97_F	337_N	2.621	1.00
92_P	95_K	2.607	1.00
92_P	341_Y	2.600	1.00
344_H	347_T	2.544	1.00
258_E	262_A	2.477	1.00
337_N	340_A	2.442	1.00
251_A	255_R	2.374	1.00
77_R	104_D	2.304	1.00
92_P	350_N	2.280	1.00
202_T	206_S	2.236	1.00
92_P	96_K	2.218	1.00
125_D	332_P	2.217	1.00
91_R	95_K	2.214	1.00
158_K	364_H	2.187	1.00
215_A	218_A	2.165	1.00
147_D	185_Q	2.143	1.00
204_V	287_D	2.135	1.00
93_F	337_N	2.130	1.00
88_N	91_R	2.127	1.00
349_K	353_W	2.124	1.00
218_A	221_Y	2.094	1.00
259_A	262_A	2.086	1.00
255_R	258_E	2.056	1.00
74_E	334_V	2.039	1.00
90_Q	94_E	1.980	1.00
200_L	309_E	1.979	1.00
127_A	327_L	1.951	1.00
73_G	100_Q	1.948	1.00
143_I	325_T	1.944	1.00
21_A	24_T	1.942	1.00
161_D	165_R	1.936	1.00
205_V	288_I	1.911	1.00
181_D	186_L	1.889	1.00
203_D	207_E	1.888	1.00
254_E	258_E	1.885	1.00
90_Q	338_Y	1.854	1.00
144_R	328_K	1.845	1.00
350_N	354_P	1.828	1.00
93_F	97_F	1.817	1.00
22_A	25_A	1.802	1.00
111_D	114_N	1.763	1.00
214_D	217_W	1.761	1.00
280_A	285_D	1.757	1.00
347_T	350_N	1.727	1.00
188_G	323_T	1.721	1.00
217_W	221_Y	1.698	1.00
208_S	211_R	1.687	1.00
94_E	97_F	1.677	1.00
88_N	92_P	1.676	1.00
91_R	94_E	1.665	1.00
345_G	349_K	1.654	1.00
96_K	344_H	1.647	1.00
217_W	263_L	1.645	1.00
149_E	336_T	1.633	1.00
258_E	261_V	1.598	1.00
350_N	353_W	1.575	1.00
201_N	204_V	1.571	1.00
259_A	263_L	1.566	1.00
214_D	218_A	1.544	1.00
211_R	215_A	1.537	1.00
252_E	255_R	1.531	1.00
74_E	332_P	1.526	1.00
334_V	337_N	1.525	1.00
273_D	276_S	1.518	1.00
217_W	259_A	1.516	1.00
112_A	117_D	1.513	1.00
326_M	339_L	1.487	1.00
330_S	333_S	1.474	1.00
210_A	215_A	1.473	1.00
333_S	336_T	1.461	1.00
373_R	377_T	1.460	1.00
111_D	115_R	1.458	1.00
107_T	111_D	1.456	1.00
145_P	148_Y	1.452	1.00
80_T	103_V	1.450	1.00
279_T	283_A	1.414	1.00
90_Q	103_V	1.399	1.00
145_P	186_L	1.397	1.00
93_F	341_Y	1.394	1.00
126_H	335_S	1.388	1.00
93_F	99_C	1.387	1.00
156_F	164_Q	1.374	1.00
373_R	376_R	1.371	1.00
112_A	115_R	1.367	1.00
382_D	386_D	1.357	1.00
126_H	338_Y	1.356	1.00
243_D	246_A	1.353	1.00
251_A	254_E	1.348	1.00
330_S	335_S	1.343	1.00
93_F	338_Y	1.340	1.00
165_R	181_D	1.334	1.00
161_D	164_Q	1.333	1.00
200_L	311_R	1.313	1.00
336_T	340_A	1.308	1.00
138_A	187_Y	1.304	1.00
280_A	286_I	1.301	1.00
141_G	328_K	1.275	1.00
198_F	311_R	1.266	1.00
126_H	339_L	1.261	1.00
364_H	367_S	1.250	1.00
99_C	337_N	1.242	1.00
129_F	325_T	1.231	1.00
153_P	340_A	1.228	1.00
345_G	364_H	1.226	1.00
11_Q	14_K	1.215	1.00
197_S	310_A	1.215	1.00
160_T	363_P	1.213	1.00
326_M	335_S	1.211	1.00
205_V	219_D	1.211	1.00
341_Y	347_T	1.204	1.00
266_N	269_G	1.200	1.00
88_N	350_N	1.196	1.00
19_S	23_T	1.189	1.00
338_Y	342_M	1.186	1.00
150_A	154_Y	1.180	1.00
220_E	288_I	1.166	1.00
223_V	226_Y	1.159	1.00
151_W	154_Y	1.153	1.00
90_Q	101_T	1.146	1.00
152_K	157_D	1.146	1.00
309_E	312_V	1.141	1.00
199_A	291_V	1.133	1.00
204_V	207_E	1.133	1.00
22_A	26_L	1.129	1.00
127_A	325_T	1.125	1.00
138_A	182_A	1.124	1.00
267_A	270_V	1.124	1.00
125_D	330_S	1.120	1.00
255_R	259_A	1.116	1.00
262_A	265_E	1.112	1.00
327_L	330_S	1.106	1.00
386_D	389_D	1.104	1.00
198_F	288_I	1.103	1.00
237_M	242_I	1.103	1.00
362_V	365_Q	1.093	1.00
276_S	279_T	1.093	1.00
216_A	288_I	1.091	1.00
158_K	362_V	1.083	1.00
113_F	116_L	1.081	1.00
137_L	143_I	1.081	1.00
76_I	338_Y	1.071	1.00
96_K	341_Y	1.068	1.00
150_A	153_P	1.066	1.00
346_I	349_K	1.063	1.00
93_F	334_V	1.062	1.00
247_T	250_D	1.061	1.00
216_A	220_E	1.061	1.00
101_T	338_Y	1.058	1.00
385_Q	389_D	1.054	1.00
219_D	288_I	1.054	1.00
78_H	324_T	1.053	1.00
328_K	333_S	1.046	1.00
112_A	116_L	1.044	1.00
188_G	325_T	1.041	1.00
180_F	323_T	1.040	1.00
114_N	117_D	1.036	1.00
346_I	350_N	1.029	1.00
88_N	354_P	1.027	1.00
21_A	25_A	1.023	1.00
89_V	92_P	1.019	1.00
150_A	336_T	1.016	1.00
113_F	133_W	1.012	1.00
94_E	98_D	1.011	1.00
76_I	334_V	1.011	1.00
92_P	347_T	1.009	1.00
298_G	302_R	1.003	1.00
23_T	26_L	1.003	1.00
248_H	253_V	0.996	1.00
225_V	228_L	0.993	1.00
326_M	336_T	0.991	1.00
79_L	124_F	0.988	1.00
303_G	306_F	0.986	1.00
279_T	282_A	0.985	1.00
203_D	307_E	0.974	1.00
69_T	72_S	0.970	1.00
235_I	238_L	0.961	1.00
89_V	347_T	0.960	1.00
92_P	346_I	0.952	1.00
326_M	330_S	0.945	1.00
123_E	327_L	0.937	1.00
250_D	253_V	0.934	1.00
223_V	227_D	0.934	1.00
144_R	330_S	0.933	1.00
191_Q	324_T	0.931	1.00
25_A	28_G	0.929	1.00
159_Y	164_Q	0.926	1.00
228_L	231_W	0.924	1.00
388_I	391_S	0.924	1.00
113_F	117_D	0.921	1.00
281_L	308_Y	0.916	1.00
250_D	254_E	0.916	1.00
386_D	390_K	0.914	1.00
115_R	118_D	0.911	1.00
136_D	140_A	0.908	1.00
180_F	186_L	0.903	1.00
76_I	332_P	0.902	1.00
17_A	21_A	0.897	1.00
144_R	336_T	0.895	1.00
96_K	346_I	0.895	1.00
275_G	278_N	0.894	1.00
338_Y	341_Y	0.891	1.00
143_I	187_Y	0.890	1.00
349_K	365_Q	0.890	1.00
157_D	164_Q	0.889	1.00
324_T	339_L	0.888	1.00
209_D	219_D	0.883	1.00
217_W	220_E	0.881	1.00
236_V	241_G	0.881	1.00
194_G	320_W	0.871	1.00
79_L	106_F	0.870	1.00
181_D	184_G	0.867	1.00
384_L	387_I	0.852	1.00
208_S	215_A	0.851	1.00
291_V	296_I	0.850	1.00
203_D	206_S	0.849	1.00
160_T	163_F	0.849	1.00
135_P	139_E	0.845	1.00
73_G	98_D	0.830	1.00
12_Y	15_T	0.828	1.00
13_V	16_A	0.827	1.00
128_T	324_T	0.826	1.00
394_Y	397_V	0.822	1.00
18_L	22_A	0.821	1.00
200_L	209_D	0.821	1.00
231_W	234_Q	0.818	1.00
335_S	339_L	0.815	1.00
117_D	140_A	0.814	1.00
145_P	187_Y	0.814	1.00
299_S	302_R	0.813	1.00
374_R	377_T	0.813	1.00
17_A	20_A	0.813	1.00
71_S	74_E	0.812	1.00
68_N	71_S	0.807	1.00
106_F	115_R	0.806	1.00
209_D	215_A	0.806	1.00
159_Y	343_Q	0.805	1.00
146_L	339_L	0.800	1.00
153_P	157_D	0.795	1.00
249_T	252_E	0.792	1.00
161_D	363_P	0.788	1.00
324_T	342_M	0.786	1.00
144_R	326_M	0.784	1.00
144_R	327_L	0.784	1.00
213_Y	217_W	0.780	1.00
23_T	27_A	0.779	1.00
138_A	143_I	0.779	1.00
267_A	271_Y	0.777	1.00
261_V	264_F	0.777	1.00
309_E	313_P	0.776	1.00
382_D	385_Q	0.773	1.00
375_Q	379_L	0.771	1.00
133_W	136_D	0.771	1.00
231_W	235_I	0.771	1.00
260_T	264_F	0.768	1.00
164_Q	186_L	0.766	1.00
108_S	111_D	0.765	1.00
383_D	386_D	0.761	1.00
225_V	231_W	0.758	1.00
201_N	284_G	0.758	1.00
277_L	289_A	0.758	1.00
87_A	91_R	0.756	1.00
76_I	335_S	0.755	1.00
84_Y	87_A	0.753	1.00
29_C	32_G	0.744	1.00
215_A	219_D	0.743	1.00
151_W	340_A	0.743	1.00
236_V	240_E	0.741	1.00
20_A	23_T	0.741	1.00
223_V	231_W	0.741	1.00
94_E	101_T	0.738	1.00
78_H	126_H	0.737	1.00
239_R	242_I	0.735	1.00
134_L	138_A	0.734	1.00
77_R	125_D	0.733	1.00
29_C	33_L	0.732	1.00
89_V	341_Y	0.730	1.00
224_G	227_D	0.729	1.00
74_E	99_C	0.729	1.00
238_L	241_G	0.728	1.00
89_V	350_N	0.725	1.00
198_F	290_F	0.722	1.00
158_K	345_G	0.721	1.00
144_R	148_Y	0.719	1.00
242_I	252_E	0.718	1.00
249_T	253_V	0.718	1.00
28_G	31_G	0.714	1.00
227_D	231_W	0.714	1.00
278_N	282_A	0.713	1.00
162_L	165_R	0.712	1.00
163_F	193_F	0.710	1.00
363_P	366_S	0.709	1.00
78_H	103_V	0.706	1.00
374_R	378_V	0.705	1.00
372_N	376_R	0.704	1.00
340_A	344_H	0.703	1.00
18_L	24_T	0.702	1.00
371_L	375_Q	0.702	1.00
125_D	331_H	0.701	1.00
345_G	362_V	0.700	1.00
237_M	241_G	0.699	1.00
67_D	70_Q	0.699	1.00
159_Y	163_F	0.697	1.00
238_L	392_R	0.690	1.00
160_T	164_Q	0.688	1.00
212_S	315_E	0.685	1.00
392_R	395_T	0.685	1.00
19_S	25_A	0.684	1.00
14_K	17_A	0.684	1.00
18_L	21_A	0.683	1.00
370_R	373_R	0.682	1.00
224_G	231_W	0.681	1.00
302_R	305_R	0.680	1.00
79_L	104_D	0.680	1.00
200_L	205_V	0.679	1.00
127_A	143_I	0.678	1.00
240_E	255_R	0.676	1.00
372_N	375_Q	0.676	1.00
20_A	24_T	0.672	1.00
375_Q	378_V	0.672	1.00
33_L	36_G	0.670	1.00
104_D	124_F	0.667	1.00
82_S	86_A	0.665	1.00
160_T	366_S	0.664	1.00
232_G	235_I	0.661	1.00
280_A	283_A	0.660	1.00
147_D	336_T	0.660	1.00
268_A	271_Y	0.658	1.00
147_D	186_L	0.654	1.00
203_D	284_G	0.653	1.00
223_V	228_L	0.653	1.00
14_K	18_L	0.653	1.00
144_R	329_G	0.652	1.00
97_F	334_V	0.652	1.00
100_Q	103_V	0.650	1.00
157_D	160_T	0.649	1.00
134_L	188_G	0.649	1.00
83_G	86_A	0.648	1.00
70_Q	73_G	0.648	1.00
276_S	280_A	0.647	1.00
233_V	237_M	0.647	1.00
236_V	239_R	0.647	1.00
147_D	150_A	0.644	1.00
232_G	236_V	0.644	1.00
345_G	348_A	0.642	1.00
393_F	396_G	0.641	1.00
387_I	390_K	0.636	1.00
234_Q	241_G	0.634	1.00
199_A	308_Y	0.634	1.00
16_A	20_A	0.634	1.00
229_P	234_Q	0.634	1.00
237_M	240_E	0.633	1.00
158_K	363_P	0.631	1.00
235_I	241_G	0.630	1.00
383_D	387_I	0.629	1.00
226_Y	229_P	0.629	1.00
144_R	149_E	0.628	1.00
275_G	279_T	0.626	1.00
235_I	239_R	0.624	1.00
226_Y	231_W	0.624	1.00
157_D	161_D	0.624	1.00
224_G	229_P	0.624	1.00
12_Y	16_A	0.623	1.00
227_D	234_Q	0.622	1.00
17_A	24_T	0.621	1.00
240_E	259_A	0.620	1.00
189_V	339_L	0.618	1.00
89_V	342_M	0.617	1.00
274_V	277_L	0.617	1.00
151_W	336_T	0.610	1.00
234_Q	239_R	0.610	1.00
229_P	233_V	0.607	1.00
358_G	361_V	0.607	1.00
27_A	31_G	0.606	1.00
246_A	249_T	0.606	1.00
205_V	287_D	0.606	1.00
363_P	367_S	0.605	1.00
16_A	19_S	0.605	1.00
138_A	141_G	0.605	1.00
257_R	261_V	0.605	1.00
179_N	182_A	0.604	1.00
24_T	27_A	0.603	1.00
371_L	374_R	0.603	1.00
378_V	381_I	0.601	1.00
392_R	396_G	0.601	1.00
78_H	128_T	0.599	1.00
74_E	77_R	0.598	1.00
66_A	69_T	0.596	1.00
235_I	240_E	0.595	1.00
29_C	35_D	0.594	1.00
104_D	115_R	0.592	1.00
32_G	35_D	0.592	1.00
390_K	393_F	0.592	1.00
234_Q	238_L	0.590	1.00
74_E	98_D	0.589	1.00
17_A	23_T	0.589	1.00
192_R	322_E	0.587	1.00
29_C	34_D	0.585	1.00
34_D	37_G	0.585	1.00
15_T	19_S	0.584	1.00
202_T	307_E	0.584	1.00
380_R	383_D	0.584	1.00
391_S	394_Y	0.582	1.00
126_H	324_T	0.581	1.00
182_A	185_Q	0.580	1.00
94_E	99_C	0.578	1.00
72_S	75_T	0.577	1.00
337_N	341_Y	0.575	1.00
211_R	314_D	0.574	1.00
66_A	70_Q	0.574	1.00
14_K	25_A	0.574	1.00
209_D	311_R	0.573	1.00
266_N	270_V	0.572	1.00
296_I	299_S	0.572	1.00
376_R	379_L	0.571	1.00
19_S	22_A	0.570	1.00
225_V	232_G	0.569	1.00
194_G	322_E	0.568	1.00
26_L	29_C	0.567	1.00
247_T	253_V	0.567	1.00
225_V	229_P	0.565	1.00
125_D	335_S	0.565	1.00
390_K	395_T	0.564	1.00
295_W	299_S	0.564	1.00
229_P	232_G	0.562	1.00
210_A	219_D	0.562	1.00
352_M	360_N	0.562	1.00
256_I	260_T	0.560	1.00
97_F	338_Y	0.559	1.00
152_K	156_F	0.558	1.00
74_E	78_H	0.558	1.00
213_Y	259_A	0.556	1.00
294_N	297_N	0.555	1.00
76_I	126_H	0.555	1.00
357_G	361_V	0.555	1.00
272_A	276_S	0.555	1.00
277_L	286_I	0.555	1.00
390_K	394_Y	0.553	1.00
113_F	136_D	0.553	1.00
77_R	80_T	0.551	1.00
381_I	384_L	0.550	1.00
123_E	329_G	0.549	1.00
135_P	138_A	0.548	1.00
223_V	229_P	0.548	1.00
278_N	291_V	0.547	1.00
249_T	254_E	0.547	1.00
233_V	241_G	0.544	1.00
254_E	257_R	0.542	1.00
349_K	370_R	0.542	1.00
13_V	24_T	0.542	1.00
76_I	101_T	0.541	1.00
253_V	256_I	0.541	1.00
129_F	137_L	0.540	1.00
379_L	382_D	0.538	1.00
130_D	133_W	0.534	1.00
227_D	230_F	0.533	1.00
94_E	338_Y	0.532	1.00
317_G	320_W	0.532	1.00
326_M	333_S	0.531	1.00
254_E	261_V	0.529	1.00
146_L	336_T	0.529	1.00
246_A	250_D	0.527	1.00
149_E	333_S	0.527	1.00
252_E	256_I	0.525	1.00
77_R	124_F	0.524	1.00
137_L	142_L	0.524	1.00
181_D	185_Q	0.523	1.00
156_F	160_T	0.523	1.00
154_Y	157_D	0.523	1.00
13_V	20_A	0.523	1.00
217_W	266_N	0.523	1.00
224_G	286_I	0.522	1.00
224_G	230_F	0.522	1.00
336_T	339_L	0.521	1.00
332_P	335_S	0.521	1.00
274_V	278_N	0.521	1.00
110_L	113_F	0.519	1.00
296_I	300_L	0.519	1.00
68_N	72_S	0.516	1.00
199_A	310_A	0.516	1.00
18_L	25_A	0.515	1.00
227_D	232_G	0.513	1.00
393_F	397_V	0.512	1.00
78_H	338_Y	0.512	1.00
341_Y	344_H	0.511	1.00
344_H	348_A	0.510	1.00
206_S	209_D	0.509	1.00
389_D	393_F	0.508	1.00
268_A	272_A	0.507	1.00
232_G	241_G	0.506	1.00
385_Q	388_I	0.505	1.00
113_F	137_L	0.504	1.00
186_L	189_V	0.504	1.00
253_V	257_R	0.503	1.00
223_V	233_V	0.503	1.00
384_L	388_I	0.502	1.00
348_A	362_V	0.500	1.00
201_N	206_S	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
4mfiA	1	0.7933	100	0.334	Contact Map
3uorA	1	0.7764	100	0.336	Contact Map
4r2fA	1	0.774	100	0.345	Contact Map
4r9fA	1	0.774	100	0.345	Contact Map
3woaA	1	0.8534	100	0.369	Contact Map
3vxbA	1	0.7644	100	0.38	Contact Map
2xd3A	1	0.7548	100	0.381	Contact Map
4g68A	1	0.762	100	0.39	Contact Map
4gl0A	1	0.762	100	0.392	Contact Map
2w7yA	1	0.7764	100	0.397	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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