YPHH - ECOLI - GREMLIN Contacts

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YPHH - Uncharacterized protein YphH

UniProt:	P76586	Sequences: MRACINNQQIRHHNKCVILELLYRQKRANKSTLARLAQISIPAVSNILQELESEKRVVNIDDESQTRGHSSGTWLIAPEGDWTLCLNVTPTSIECQVANACLSPKGEFEYLQIDAPTPQALLSEIEKCWHRHRKLWPDHTINLALAIHGQVDPVTGVSQTMPQAPWTTPVEVKYLLEEKLGIRVMVDNDCVMLALAEKWQNNSQERDFCVINVDYGIGSSFVINEQIYRGSLYGSGQIGHTIVNPDGVVCDCGRYGCLETVASLSALKKQARVWLKSQPVSTQLDPEKLTTAQLIAAWQSGEPWITSWVDRSANAIGLSLYNFLNILNINQIWLYGRSCAFGENWLNTIIRQTGFNPFDRDEGPSVKATQIGFGQLSRAQQVLGIGYLYVEAQLRQI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13469
Length:	397 (361)
Sequences:	8378 (6031)
Seq/√Len:	317.4

ECOLI - YPHH MLC NAGC ALSK NANK MAK NAGK
BACSU - XYLR GLK SCRK
HALSA - Q9HMA7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
99_N	103_S	3.877	1.00
107_E	379_A	3.469	1.00
171_E	174_Y	3.419	1.00
187_D	229_R	3.378	1.00
142_N	389_Y	2.927	1.00
210_V	335_Y	2.919	1.00
152_D	155_T	2.871	1.00
98_A	386_G	2.765	1.00
58_V	77_A	2.748	1.00
209_C	323_F	2.710	1.00
96_Q	382_V	2.604	1.00
173_K	177_E	2.574	1.00
143_L	180_L	2.553	1.00
232_L	328_N	2.548	1.00
252_C	257_C	2.493	1.00
250_C	257_C	2.490	1.00
258_L	319_S	2.483	1.00
270_Q	311_R	2.446	1.00
84_L	129_W	2.418	1.00
331_Q	372_G	2.385	1.00
241_T	322_N	2.347	1.00
314_N	352_Q	2.310	1.00
123_S	179_K	2.290	1.00
22_L	28_A	2.254	1.00
126_E	179_K	2.228	1.00
320_L	332_I	2.197	1.00
58_V	75_L	2.182	1.00
203_S	208_F	2.145	1.00
95_C	128_C	2.123	1.00
108_F	131_R	2.108	1.00
313_A	317_G	2.101	1.00
223_I	228_Y	2.086	1.00
249_V	255_Y	2.047	1.00
194_A	220_S	2.032	1.00
310_D	348_T	2.031	1.00
350_I	354_G	2.007	1.00
231_S	330_N	1.960	1.00
211_I	320_L	1.958	1.00
174_Y	178_E	1.957	1.00
187_D	192_M	1.944	1.00
207_D	330_N	1.942	1.00
145_L	176_L	1.942	1.00
85_C	382_V	1.919	1.00
317_G	352_Q	1.905	1.00
130_H	179_K	1.891	1.00
187_D	191_V	1.877	1.00
175_L	178_E	1.837	1.00
313_A	349_I	1.812	1.00
22_L	57_V	1.811	1.00
193_L	210_V	1.803	1.00
194_A	222_V	1.785	1.00
353_T	371_I	1.765	1.00
200_Q	387_Y	1.745	1.00
206_R	330_N	1.743	1.00
343_E	347_N	1.727	1.00
18_I	33_L	1.706	1.00
52_E	59_N	1.704	1.00
346_L	350_I	1.684	1.00
296_A	300_S	1.680	1.00
240_H	250_C	1.667	1.00
318_L	322_N	1.658	1.00
146_A	192_M	1.656	1.00
143_L	182_I	1.633	1.00
242_I	322_N	1.608	1.00
170_V	175_L	1.606	1.00
250_C	253_G	1.603	1.00
206_R	224_N	1.598	1.00
240_H	252_C	1.586	1.00
290_T	293_Q	1.583	1.00
60_I	75_L	1.565	1.00
248_V	269_K	1.554	1.00
82_W	105_K	1.550	1.00
331_Q	370_Q	1.532	1.00
208_F	222_V	1.524	1.00
48_L	57_V	1.522	1.00
351_R	355_F	1.509	1.00
59_N	72_G	1.496	1.00
217_I	262_A	1.493	1.00
313_A	348_T	1.489	1.00
84_L	140_T	1.484	1.00
352_Q	356_N	1.483	1.00
292_A	296_A	1.472	1.00
270_Q	273_V	1.467	1.00
240_H	257_C	1.459	1.00
297_A	302_E	1.455	1.00
188_N	237_Q	1.453	1.00
299_Q	344_N	1.447	1.00
352_Q	355_F	1.446	1.00
83_T	390_V	1.445	1.00
126_E	180_L	1.439	1.00
267_L	312_S	1.433	1.00
108_F	132_H	1.431	1.00
86_L	95_C	1.421	1.00
92_S	109_E	1.409	1.00
86_L	125_I	1.409	1.00
342_G	346_L	1.401	1.00
346_L	373_F	1.398	1.00
25_Q	36_L	1.392	1.00
140_T	182_I	1.389	1.00
196_A	376_L	1.372	1.00
271_A	308_W	1.365	1.00
146_A	381_Q	1.347	1.00
33_L	44_V	1.339	1.00
324_L	353_T	1.326	1.00
323_F	326_I	1.322	1.00
248_V	261_V	1.312	1.00
192_M	385_I	1.309	1.00
32_T	35_R	1.303	1.00
96_Q	104_P	1.300	1.00
136_W	139_H	1.293	1.00
130_H	180_L	1.283	1.00
194_A	208_F	1.272	1.00
108_F	128_C	1.272	1.00
48_L	74_W	1.271	1.00
81_D	141_I	1.269	1.00
274_W	307_S	1.265	1.00
171_E	175_L	1.257	1.00
52_E	74_W	1.253	1.00
348_T	351_R	1.251	1.00
298_W	309_V	1.240	1.00
208_F	333_W	1.234	1.00
245_P	318_L	1.222	1.00
324_L	332_I	1.221	1.00
199_W	391_E	1.219	1.00
176_L	184_V	1.218	1.00
197_E	201_N	1.207	1.00
21_L	28_A	1.205	1.00
248_V	260_T	1.205	1.00
348_T	352_Q	1.204	1.00
253_G	257_C	1.198	1.00
85_C	385_I	1.197	1.00
198_K	208_F	1.193	1.00
221_F	228_Y	1.189	1.00
119_Q	175_L	1.187	1.00
270_Q	274_W	1.185	1.00
175_L	179_K	1.181	1.00
248_V	270_Q	1.179	1.00
21_L	36_L	1.176	1.00
123_S	127_K	1.162	1.00
79_E	99_N	1.161	1.00
293_Q	296_A	1.153	1.00
135_L	139_H	1.134	1.00
86_L	129_W	1.132	1.00
177_E	184_V	1.129	1.00
191_V	227_I	1.128	1.00
270_Q	308_W	1.125	1.00
30_K	74_W	1.118	1.00
117_T	120_A	1.117	1.00
310_D	351_R	1.116	1.00
94_E	109_E	1.116	1.00
98_A	104_P	1.105	1.00
110_Y	127_K	1.095	1.00
150_Q	161_M	1.095	1.00
271_A	305_I	1.094	1.00
185_M	389_Y	1.092	1.00
181_G	184_V	1.088	1.00
110_Y	128_C	1.079	1.00
128_C	131_R	1.075	1.00
187_D	388_L	1.074	1.00
190_C	212_N	1.073	1.00
157_V	169_P	1.070	1.00
213_V	316_I	1.062	1.00
157_V	171_E	1.061	1.00
209_C	219_S	1.056	1.00
347_N	351_R	1.044	1.00
20_E	24_R	1.043	1.00
32_T	36_L	1.040	1.00
298_W	306_T	1.035	1.00
188_N	216_G	1.032	1.00
59_N	74_W	1.029	1.00
28_A	36_L	1.027	1.00
83_T	389_Y	1.024	1.00
248_V	273_V	1.021	1.00
296_A	299_Q	1.021	1.00
271_A	275_L	1.017	1.00
177_E	181_G	1.016	1.00
230_G	235_S	1.009	1.00
224_N	228_Y	1.009	1.00
85_C	144_A	1.007	1.00
209_C	221_F	1.005	1.00
275_L	289_L	1.005	1.00
130_H	137_P	0.999	1.00
293_Q	297_A	0.996	1.00
228_Y	327_L	0.992	1.00
19_L	76_I	0.992	1.00
18_I	44_V	0.992	1.00
122_L	175_L	0.991	1.00
216_G	237_Q	0.991	1.00
207_D	231_S	0.987	1.00
198_K	225_E	0.984	1.00
244_N	261_V	0.980	1.00
274_W	308_W	0.979	1.00
207_D	224_N	0.976	1.00
199_W	387_Y	0.973	1.00
198_K	222_V	0.972	1.00
325_N	358_F	0.966	1.00
207_D	223_I	0.964	1.00
204_Q	375_Q	0.962	1.00
30_K	59_N	0.958	1.00
271_A	276_K	0.958	1.00
61_D	73_T	0.956	1.00
221_F	327_L	0.951	1.00
347_N	350_I	0.949	1.00
110_Y	131_R	0.948	1.00
317_G	353_T	0.946	1.00
27_R	75_L	0.946	1.00
207_D	228_Y	0.942	1.00
318_L	356_N	0.938	1.00
267_L	294_L	0.938	1.00
41_I	45_S	0.934	1.00
132_H	135_L	0.934	1.00
317_G	321_Y	0.932	1.00
21_L	37_A	0.929	1.00
313_A	352_Q	0.928	1.00
310_D	352_Q	0.927	1.00
324_L	369_T	0.926	1.00
82_W	139_H	0.925	1.00
343_E	373_F	0.924	1.00
206_R	225_E	0.923	1.00
144_A	192_M	0.917	1.00
333_W	372_G	0.916	1.00
257_C	260_T	0.912	1.00
295_I	309_V	0.910	1.00
334_L	339_C	0.908	1.00
197_E	376_L	0.906	1.00
306_T	310_D	0.906	1.00
192_M	388_L	0.904	1.00
98_A	383_L	0.903	1.00
106_G	132_H	0.901	1.00
298_W	344_N	0.899	1.00
342_G	373_F	0.899	1.00
193_L	381_Q	0.897	1.00
209_C	332_I	0.896	1.00
230_G	236_G	0.895	1.00
316_I	349_I	0.892	1.00
122_L	172_V	0.888	1.00
240_H	253_G	0.887	1.00
173_K	186_V	0.885	1.00
298_W	301_G	0.884	1.00
311_R	315_A	0.883	1.00
270_Q	312_S	0.882	1.00
274_W	304_W	0.881	1.00
78_P	101_C	0.878	1.00
250_C	256_G	0.875	1.00
110_Y	124_E	0.871	1.00
275_L	304_W	0.867	1.00
82_W	135_L	0.867	1.00
244_N	248_V	0.866	1.00
377_S	380_Q	0.864	1.00
126_E	130_H	0.859	1.00
156_G	173_K	0.859	1.00
104_P	107_E	0.857	1.00
55_K	77_A	0.853	1.00
118_P	175_L	0.847	1.00
244_N	247_G	0.846	1.00
83_T	98_A	0.844	1.00
49_Q	53_S	0.842	1.00
258_L	312_S	0.842	1.00
144_A	389_Y	0.841	1.00
299_Q	343_E	0.841	1.00
185_M	392_A	0.837	1.00
333_W	374_G	0.835	1.00
267_L	308_W	0.830	1.00
201_N	204_Q	0.829	1.00
190_C	220_S	0.826	1.00
242_I	245_P	0.824	1.00
31_S	71_S	0.822	1.00
86_L	143_L	0.819	1.00
127_K	131_R	0.818	1.00
242_I	318_L	0.816	1.00
268_K	294_L	0.814	1.00
317_G	356_N	0.812	1.00
147_I	158_S	0.812	1.00
120_A	123_S	0.811	1.00
314_N	318_L	0.810	1.00
22_L	33_L	0.809	1.00
297_A	305_I	0.808	1.00
242_I	254_R	0.806	1.00
122_L	170_V	0.806	1.00
208_F	331_Q	0.804	1.00
342_G	347_N	0.802	1.00
211_I	238_I	0.799	1.00
119_Q	123_S	0.799	1.00
124_E	127_K	0.799	1.00
94_E	107_E	0.797	1.00
194_A	210_V	0.796	1.00
96_Q	107_E	0.794	1.00
271_A	294_L	0.792	1.00
52_E	57_V	0.791	1.00
95_C	110_Y	0.789	1.00
304_W	307_S	0.788	1.00
161_M	166_W	0.788	1.00
295_I	299_Q	0.788	1.00
63_E	71_S	0.785	1.00
254_R	257_C	0.784	1.00
84_L	97_V	0.784	1.00
254_R	356_N	0.782	1.00
97_V	133_R	0.782	1.00
241_T	319_S	0.780	1.00
134_K	137_P	0.779	1.00
88_V	93_I	0.778	1.00
58_V	78_P	0.777	1.00
39_I	44_V	0.777	1.00
216_G	259_E	0.777	1.00
231_S	329_I	0.772	1.00
250_C	260_T	0.770	0.99
177_E	183_R	0.768	0.99
84_L	143_L	0.765	0.99
298_W	305_I	0.765	0.99
27_R	73_T	0.764	0.99
161_M	164_A	0.760	0.99
221_F	236_G	0.758	0.99
99_N	105_K	0.757	0.99
314_N	348_T	0.753	0.99
56_R	80_G	0.753	0.99
247_G	261_V	0.751	0.99
124_E	128_C	0.749	0.99
92_S	264_L	0.747	0.99
219_S	238_I	0.747	0.99
376_L	380_Q	0.742	0.99
152_D	159_Q	0.742	0.99
191_V	237_Q	0.738	0.99
23_Y	76_I	0.734	0.99
268_K	272_R	0.733	0.99
22_L	74_W	0.732	0.99
309_V	313_A	0.731	0.99
174_Y	177_E	0.731	0.99
189_D	218_G	0.730	0.99
230_G	328_N	0.730	0.99
41_I	46_N	0.724	0.99
345_W	348_T	0.723	0.99
235_S	328_N	0.722	0.99
272_R	287_E	0.721	0.99
261_V	315_A	0.720	0.99
351_R	354_G	0.719	0.99
269_K	273_V	0.718	0.99
135_L	138_D	0.715	0.99
156_G	171_E	0.715	0.99
118_P	170_V	0.715	0.99
252_C	256_G	0.714	0.99
245_P	314_N	0.714	0.99
289_L	293_Q	0.713	0.99
83_T	141_I	0.711	0.99
193_L	335_Y	0.711	0.99
113_I	116_P	0.709	0.99
176_L	180_L	0.708	0.99
340_A	378_R	0.707	0.99
303_P	307_S	0.704	0.99
31_S	35_R	0.704	0.99
320_L	353_T	0.704	0.99
213_V	338_S	0.702	0.99
200_Q	383_L	0.701	0.99
244_N	318_L	0.698	0.99
354_G	368_A	0.696	0.99
346_L	349_I	0.695	0.99
231_S	328_N	0.695	0.99
307_S	311_R	0.694	0.99
328_N	369_T	0.693	0.99
238_I	258_L	0.693	0.99
321_Y	356_N	0.693	0.99
297_A	300_S	0.692	0.99
191_V	220_S	0.691	0.99
94_E	382_V	0.691	0.99
188_N	218_G	0.689	0.99
75_L	101_C	0.687	0.99
163_Q	251_D	0.686	0.99
98_A	102_L	0.682	0.99
308_W	312_S	0.682	0.99
25_Q	28_A	0.681	0.99
188_N	191_V	0.680	0.99
218_G	237_Q	0.678	0.99
374_G	380_Q	0.673	0.99
216_G	239_G	0.672	0.99
372_G	375_Q	0.671	0.99
148_H	163_Q	0.669	0.99
63_E	66_T	0.668	0.99
214_D	337_R	0.666	0.99
201_N	205_E	0.662	0.98
97_V	140_T	0.662	0.98
210_V	333_W	0.661	0.98
147_I	151_V	0.660	0.98
209_C	329_I	0.659	0.98
343_E	350_I	0.658	0.98
320_L	349_I	0.658	0.98
126_E	176_L	0.658	0.98
310_D	313_A	0.657	0.98
127_K	130_H	0.655	0.98
77_A	80_G	0.655	0.98
195_L	198_K	0.650	0.98
149_G	259_E	0.650	0.98
88_V	147_I	0.647	0.98
252_C	260_T	0.644	0.98
250_C	254_R	0.640	0.98
106_G	133_R	0.638	0.98
268_K	291_T	0.638	0.98
295_I	341_F	0.636	0.98
240_H	256_G	0.635	0.98
202_N	375_Q	0.633	0.98
21_L	33_L	0.631	0.98
142_N	185_M	0.630	0.98
246_D	314_N	0.630	0.98
156_G	177_E	0.628	0.98
82_W	97_V	0.627	0.98
335_Y	374_G	0.627	0.98
89_T	215_Y	0.626	0.98
307_S	310_D	0.623	0.98
302_E	305_I	0.623	0.98
197_E	374_G	0.623	0.98
342_G	348_T	0.622	0.98
295_I	298_W	0.622	0.98
178_E	181_G	0.619	0.98
87_N	381_Q	0.619	0.98
314_N	355_F	0.618	0.98
321_Y	325_N	0.617	0.98
243_V	315_A	0.615	0.98
18_I	47_I	0.614	0.98
369_T	373_F	0.613	0.98
60_I	73_T	0.612	0.97
320_L	334_L	0.610	0.97
40_S	43_A	0.609	0.97
243_V	319_S	0.608	0.97
90_P	215_Y	0.608	0.97
330_N	370_Q	0.607	0.97
89_T	337_R	0.604	0.97
29_N	71_S	0.603	0.97
152_D	156_G	0.600	0.97
334_L	371_I	0.600	0.97
244_N	315_A	0.597	0.97
243_V	258_L	0.596	0.97
104_P	383_L	0.596	0.97
189_D	212_N	0.596	0.97
202_N	205_E	0.593	0.97
198_K	207_D	0.593	0.97
350_I	370_Q	0.592	0.97
197_E	375_Q	0.590	0.97
242_I	356_N	0.589	0.97
342_G	345_W	0.589	0.97
303_P	306_T	0.589	0.97
195_L	388_L	0.586	0.97
48_L	52_E	0.585	0.97
78_P	103_S	0.584	0.97
116_P	124_E	0.583	0.97
85_C	386_G	0.583	0.97
193_L	212_N	0.582	0.97
203_S	333_W	0.581	0.97
274_W	311_R	0.580	0.97
211_I	219_S	0.580	0.97
134_K	138_D	0.579	0.97
142_N	183_R	0.578	0.96
88_V	125_I	0.577	0.96
129_W	180_L	0.577	0.96
315_A	319_S	0.576	0.96
254_R	260_T	0.571	0.96
134_K	139_H	0.571	0.96
253_G	256_G	0.571	0.96
113_I	124_E	0.570	0.96
150_Q	234_G	0.570	0.96
20_E	23_Y	0.569	0.96
83_T	142_N	0.569	0.96
185_M	388_L	0.565	0.96
260_T	269_K	0.563	0.96
291_T	294_L	0.563	0.96
93_I	110_Y	0.562	0.96
97_V	135_L	0.562	0.96
161_M	167_T	0.561	0.96
37_A	44_V	0.560	0.96
264_L	268_K	0.560	0.96
344_N	348_T	0.559	0.96
97_V	106_G	0.558	0.96
349_I	353_T	0.557	0.96
267_L	291_T	0.555	0.96
301_G	306_T	0.554	0.96
21_L	25_Q	0.551	0.95
30_K	41_I	0.550	0.95
354_G	366_V	0.550	0.95
334_L	373_F	0.548	0.95
242_I	247_G	0.547	0.95
241_T	323_F	0.546	0.95
202_N	372_G	0.545	0.95
247_G	255_Y	0.545	0.95
145_L	172_V	0.545	0.95
343_E	346_L	0.544	0.95
321_Y	352_Q	0.544	0.95
376_L	383_L	0.543	0.95
267_L	338_S	0.542	0.95
272_R	276_K	0.541	0.95
133_R	138_D	0.540	0.95
95_C	108_F	0.539	0.95
126_E	175_L	0.538	0.95
198_K	206_R	0.537	0.95
120_A	124_E	0.537	0.95
50_E	53_S	0.537	0.95
271_A	297_A	0.536	0.95
160_T	167_T	0.535	0.95
238_I	326_I	0.532	0.94
268_K	271_A	0.532	0.94
272_R	277_S	0.531	0.94
264_L	338_S	0.531	0.94
313_A	345_W	0.531	0.94
78_P	99_N	0.531	0.94
262_A	315_A	0.529	0.94
193_L	380_Q	0.529	0.94
93_I	124_E	0.528	0.94
292_A	340_A	0.528	0.94
93_I	112_Q	0.527	0.94
202_N	333_W	0.527	0.94
153_P	229_R	0.527	0.94
243_V	261_V	0.526	0.94
173_K	184_V	0.526	0.94
137_P	182_I	0.525	0.94
162_P	251_D	0.523	0.94
85_C	96_Q	0.522	0.94
234_G	328_N	0.522	0.94
191_V	195_L	0.521	0.94
226_Q	391_E	0.521	0.94
223_I	329_I	0.520	0.94
89_T	92_S	0.520	0.94
129_W	143_L	0.520	0.94
44_V	48_L	0.518	0.94
247_G	257_C	0.517	0.94
147_I	172_V	0.516	0.94
191_V	236_G	0.516	0.94
159_Q	169_P	0.516	0.94
46_N	49_Q	0.516	0.94
46_N	50_E	0.515	0.93
47_I	50_E	0.514	0.93
213_V	264_L	0.512	0.93
349_I	352_Q	0.511	0.93
87_N	188_N	0.511	0.93
79_E	105_K	0.511	0.93
21_L	24_R	0.510	0.93
83_T	100_A	0.508	0.93
88_V	145_L	0.508	0.93
94_E	378_R	0.508	0.93
272_R	275_L	0.507	0.93
244_N	255_Y	0.506	0.93
294_L	298_W	0.505	0.93
256_G	260_T	0.504	0.93
54_E	58_V	0.503	0.93
195_L	199_W	0.502	0.93
208_F	330_N	0.501	0.93
383_L	386_G	0.500	0.92

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
1z05A	2	0.9647	100	0.164	Contact Map
1z6rA	3	0.932	100	0.175	Contact Map
2hoeA	2	0.8766	100	0.223	Contact Map
4ijaA	2	0.9068	100	0.257	Contact Map
3o8mA	1	0.9169	100	0.367	Contact Map
2ap1A	2	0.7406	100	0.378	Contact Map
4db3A	2	0.7557	100	0.38	Contact Map
2yhwA	2	0.7531	100	0.395	Contact Map
1bdgA	1	0.8892	100	0.399	Contact Map
3f9mA	1	0.8942	100	0.4	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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