PHNM - ECOLI - GREMLIN Contacts

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PHNM - Alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase

UniProt:	P16689	Sequences: MIINNVKLVLENEVVSGSLEVQNGEIRAFAESQSRLPEAMDGEGGWLLPGLIELHTDNLDKFFTPRPKVDWPAHSAMSSHDALMVASGITTVLDAVAIGDVRDGGDRLENLEKMINAIEETQKRGVNRAEHRLHLRCELPHHTTLPLFEKLVQREPVTLVSLMDHSPGQRQFANREKYREYYQGKYSLTDAQMQQYEEEQLALAARWSQPNRESIAALCRARKIALASHDDATHAHVAESHQLGSVIAEFPTTFEAAEASRKHGMNVLMGAPNIVRGGSHSGNVAASELAQLGLLDILSSDYYPASLLDAAFRVADDQSNRFTLPQAVKLVTKNPAQALNLQDRGVIGEGKRADLVLAHRKDNHIHIDHVWRQGKRVF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10722
Length:	378 (336)
Sequences:	34945 (27998)
Seq/√Len:	1527.4

ECOLI - PHNM SSNA GUAD YAHJ CODA IADA ALLB PHYDA NAGA ADEC
BACSU - HUTI YTCJ ALLB NAGA PYRC YERA ADEC
HALSA - HUTI MTAD Q9HNZ2 Q9HQE0 Q9HHS1 PYRC
SULSO - Q97WS6 Q97VT3 Q97XD4 Q97V65 Q97W09 Q7LXN1 Q980B7 Q97VF3 PYRC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
371_W	376_R	4.733	1.00
346_V	351_K	4.536	1.00
3_I	42_G	4.162	1.00
45_G	368_D	3.976	1.00
22_Q	27_R	3.713	1.00
369_H	376_R	3.658	1.00
48_L	358_A	3.402	1.00
42_G	357_L	3.329	1.00
323_T	326_Q	3.294	1.00
6_V	42_G	3.162	1.00
348_G	351_K	3.046	1.00
287_S	291_Q	2.747	1.00
28_A	349_E	2.720	1.00
352_R	373_Q	2.662	1.00
4_N	39_A	2.639	1.00
50_G	90_T	2.547	1.00
24_G	352_R	2.506	1.00
48_L	356_V	2.417	1.00
30_A	33_Q	2.258	1.00
18_S	33_Q	2.196	1.00
329_K	333_K	2.179	1.00
25_E	352_R	2.169	1.00
295_L	337_Q	2.165	1.00
326_Q	329_K	2.136	1.00
19_L	47_L	2.129	1.00
347_I	355_L	2.109	1.00
21_V	355_L	2.108	1.00
359_H	368_D	2.063	1.00
47_L	357_L	2.058	1.00
344_R	352_R	2.055	1.00
355_L	371_W	2.043	1.00
45_G	359_H	1.985	1.00
20_E	37_P	1.958	1.00
47_L	355_L	1.937	1.00
45_G	357_L	1.926	1.00
8_L	17_G	1.896	1.00
6_V	47_L	1.893	1.00
4_N	18_S	1.880	1.00
25_E	344_R	1.834	1.00
24_G	373_Q	1.833	1.00
258_E	292_L	1.762	1.00
333_K	346_V	1.761	1.00
356_V	367_I	1.738	1.00
337_Q	342_Q	1.719	1.00
5_N	41_D	1.697	1.00
218_L	221_A	1.689	1.00
297_I	338_A	1.679	1.00
242_Q	245_S	1.668	1.00
48_L	51_L	1.663	1.00
329_K	334_N	1.637	1.00
20_E	28_A	1.567	1.00
26_I	347_I	1.567	1.00
334_N	337_Q	1.566	1.00
341_L	344_R	1.548	1.00
343_D	351_K	1.544	1.00
217_A	221_A	1.521	1.00
328_V	332_T	1.503	1.00
333_K	337_Q	1.502	1.00
19_L	355_L	1.496	1.00
19_L	347_I	1.491	1.00
290_A	326_Q	1.490	1.00
220_R	243_L	1.481	1.00
189_T	192_Q	1.480	1.00
112_E	116_N	1.480	1.00
258_E	262_K	1.472	1.00
176_E	179_R	1.458	1.00
7_K	16_S	1.456	1.00
209_Q	213_E	1.456	1.00
18_S	32_S	1.451	1.00
192_Q	195_Q	1.444	1.00
254_F	288_E	1.428	1.00
134_H	137_C	1.410	1.00
307_L	310_A	1.402	1.00
357_L	371_W	1.393	1.00
29_F	349_E	1.370	1.00
233_T	236_H	1.366	1.00
285_A	288_E	1.364	1.00
187_S	192_Q	1.342	1.00
213_E	217_A	1.338	1.00
5_N	44_G	1.336	1.00
337_Q	346_V	1.329	1.00
311_A	314_V	1.323	1.00
17_G	31_E	1.321	1.00
218_L	222_R	1.304	1.00
242_Q	246_V	1.302	1.00
289_L	294_L	1.301	1.00
176_E	180_E	1.286	1.00
179_R	183_Q	1.281	1.00
54_L	297_I	1.269	1.00
303_Y	306_S	1.258	1.00
248_A	251_P	1.257	1.00
174_N	177_K	1.249	1.00
357_L	369_H	1.248	1.00
20_E	27_R	1.236	1.00
259_A	263_H	1.236	1.00
42_G	47_L	1.231	1.00
235_A	239_E	1.227	1.00
189_T	195_Q	1.225	1.00
6_V	357_L	1.223	1.00
46_W	360_R	1.220	1.00
359_H	366_H	1.214	1.00
52_I	335_P	1.209	1.00
309_D	312_F	1.199	1.00
177_K	180_E	1.199	1.00
18_S	34_S	1.199	1.00
48_L	328_V	1.199	1.00
187_S	190_D	1.192	1.00
8_L	19_L	1.190	1.00
297_I	335_P	1.187	1.00
3_I	21_V	1.183	1.00
54_L	335_P	1.182	1.00
17_G	30_A	1.175	1.00
297_I	334_N	1.175	1.00
358_A	367_I	1.172	1.00
18_S	30_A	1.168	1.00
84_M	92_V	1.168	1.00
190_D	193_M	1.166	1.00
254_F	257_A	1.157	1.00
305_A	309_D	1.156	1.00
52_I	91_T	1.154	1.00
260_S	267_V	1.154	1.00
229_H	301_D	1.145	1.00
180_E	183_Q	1.144	1.00
5_N	43_E	1.130	1.00
54_L	339_L	1.127	1.00
266_N	338_A	1.121	1.00
208_S	211_N	1.117	1.00
130_E	134_H	1.115	1.00
220_R	246_V	1.114	1.00
11_E	333_K	1.112	1.00
40_M	371_W	1.112	1.00
21_V	371_W	1.111	1.00
288_E	291_Q	1.108	1.00
113_K	116_N	1.107	1.00
179_R	184_G	1.106	1.00
234_H	238_A	1.105	1.00
257_A	292_L	1.104	1.00
17_G	29_F	1.102	1.00
130_E	133_L	1.101	1.00
249_E	252_T	1.095	1.00
307_L	312_F	1.093	1.00
93_L	339_L	1.091	1.00
342_Q	351_K	1.090	1.00
129_A	134_H	1.088	1.00
316_D	327_A	1.088	1.00
255_E	258_E	1.086	1.00
225_A	340_N	1.080	1.00
178_Y	181_Y	1.078	1.00
27_R	349_E	1.077	1.00
30_A	34_S	1.075	1.00
219_C	226_L	1.074	1.00
308_L	312_F	1.071	1.00
266_N	295_L	1.066	1.00
214_S	217_A	1.063	1.00
303_Y	308_L	1.058	1.00
192_Q	196_Y	1.058	1.00
118_I	122_Q	1.055	1.00
9_V	328_V	1.049	1.00
36_L	39_A	1.047	1.00
280_H	284_V	1.041	1.00
189_T	193_M	1.039	1.00
26_I	355_L	1.038	1.00
210_P	213_E	1.034	1.00
322_F	330_L	1.029	1.00
230_D	233_T	1.026	1.00
120_E	123_K	1.022	1.00
192_Q	197_E	1.017	1.00
20_E	36_L	1.016	1.00
303_Y	310_A	1.013	1.00
113_K	117_A	1.012	1.00
132_R	136_R	1.011	1.00
259_A	262_K	1.011	1.00
288_E	292_L	1.009	1.00
40_M	369_H	1.009	1.00
330_L	334_N	1.007	1.00
3_I	355_L	1.003	1.00
193_M	196_Y	1.001	1.00
356_V	370_V	0.998	1.00
116_N	120_E	0.996	1.00
280_H	283_N	0.990	1.00
106_D	110_N	0.977	1.00
132_R	135_L	0.972	1.00
52_I	336_A	0.971	1.00
79_S	82_A	0.968	1.00
28_A	34_S	0.968	1.00
9_V	14_V	0.967	1.00
115_I	118_I	0.966	1.00
131_H	134_H	0.959	1.00
12_N	15_V	0.957	1.00
310_A	314_V	0.954	1.00
109_E	113_K	0.953	1.00
306_S	309_D	0.951	1.00
190_D	196_Y	0.949	1.00
119_E	122_Q	0.944	1.00
54_L	268_L	0.943	1.00
307_L	314_V	0.943	1.00
20_E	30_A	0.940	1.00
3_I	47_L	0.938	1.00
132_R	137_C	0.936	1.00
52_I	339_L	0.930	1.00
186_Y	192_Q	0.929	1.00
7_K	46_W	0.927	1.00
187_S	191_A	0.926	1.00
178_Y	182_Y	0.925	1.00
268_L	297_I	0.924	1.00
306_S	310_A	0.922	1.00
3_I	371_W	0.922	1.00
308_L	311_A	0.922	1.00
180_E	184_G	0.922	1.00
121_T	124_R	0.921	1.00
232_A	236_H	0.920	1.00
118_I	121_T	0.918	1.00
193_M	197_E	0.916	1.00
333_K	351_K	0.916	1.00
31_E	34_S	0.916	1.00
176_E	181_Y	0.913	1.00
117_A	120_E	0.913	1.00
186_Y	189_T	0.911	1.00
306_S	311_A	0.910	1.00
304_P	310_A	0.908	1.00
181_Y	184_G	0.906	1.00
118_I	123_K	0.905	1.00
38_E	376_R	0.894	1.00
343_D	352_R	0.891	1.00
288_E	320_N	0.891	1.00
191_A	194_Q	0.889	1.00
81_D	85_V	0.886	1.00
254_F	285_A	0.882	1.00
331_V	335_P	0.881	1.00
107_R	110_N	0.880	1.00
55_H	229_H	0.880	1.00
20_E	33_Q	0.877	1.00
306_S	312_F	0.876	1.00
254_F	258_E	0.872	1.00
78_S	82_A	0.871	1.00
187_S	193_M	0.865	1.00
111_L	115_I	0.865	1.00
303_Y	307_L	0.865	1.00
312_F	315_A	0.863	1.00
304_P	307_L	0.856	1.00
247_I	338_A	0.855	1.00
243_L	246_V	0.855	1.00
137_C	140_P	0.850	1.00
310_A	313_R	0.849	1.00
129_A	132_R	0.848	1.00
251_P	267_V	0.847	1.00
144_T	147_L	0.846	1.00
186_Y	190_D	0.846	1.00
225_A	246_V	0.846	1.00
185_K	189_T	0.844	1.00
177_K	181_Y	0.843	1.00
111_L	118_I	0.841	1.00
175_R	178_Y	0.837	1.00
85_V	372_R	0.830	1.00
3_I	40_M	0.830	1.00
307_L	311_A	0.822	1.00
83_L	86_A	0.822	1.00
250_F	253_T	0.820	1.00
51_L	331_V	0.820	1.00
367_I	370_V	0.820	1.00
4_N	41_D	0.819	1.00
112_E	115_I	0.818	1.00
9_V	46_W	0.814	1.00
176_E	183_Q	0.813	1.00
116_N	119_E	0.811	1.00
42_G	45_G	0.807	1.00
190_D	194_Q	0.806	1.00
147_L	150_K	0.805	1.00
45_G	369_H	0.805	1.00
194_Q	197_E	0.805	1.00
57_D	229_H	0.798	1.00
305_A	310_A	0.795	1.00
133_L	138_E	0.794	1.00
256_A	259_A	0.791	1.00
239_E	243_L	0.790	1.00
175_R	182_Y	0.789	1.00
304_P	308_L	0.789	1.00
53_E	300_S	0.786	1.00
237_V	241_H	0.783	1.00
129_A	133_L	0.782	1.00
313_R	317_D	0.779	1.00
128_R	131_H	0.776	1.00
359_H	362_D	0.774	1.00
194_Q	198_E	0.771	1.00
186_Y	191_A	0.771	1.00
235_A	238_A	0.771	1.00
127_N	130_E	0.766	1.00
110_N	114_M	0.765	1.00
261_R	294_L	0.765	1.00
56_T	84_M	0.764	1.00
354_D	373_Q	0.762	1.00
270_G	273_N	0.761	1.00
107_R	111_L	0.759	1.00
5_N	42_G	0.756	1.00
11_E	328_V	0.755	1.00
133_L	136_R	0.755	1.00
59_L	97_A	0.750	1.00
188_L	192_Q	0.741	1.00
232_A	235_A	0.738	1.00
18_S	28_A	0.738	1.00
298_L	330_L	0.733	1.00
325_P	329_K	0.732	1.00
115_I	122_Q	0.732	1.00
133_L	137_C	0.731	1.00
190_D	195_Q	0.730	1.00
76_A	79_S	0.729	1.00
135_L	138_E	0.727	1.00
151_L	155_E	0.727	1.00
127_N	131_H	0.727	1.00
230_D	234_H	0.724	1.00
131_H	135_L	0.722	1.00
228_S	245_S	0.720	1.00
53_E	56_T	0.720	1.00
130_E	137_C	0.720	1.00
260_S	263_H	0.719	1.00
287_S	290_A	0.719	1.00
108_L	112_E	0.719	1.00
7_K	361_K	0.714	1.00
74_H	78_S	0.714	1.00
115_I	119_E	0.710	1.00
311_A	315_A	0.708	1.00
312_F	316_D	0.707	1.00
175_R	179_R	0.706	1.00
189_T	196_Y	0.706	1.00
270_G	299_S	0.705	1.00
189_T	194_Q	0.705	1.00
57_D	301_D	0.704	1.00
130_E	135_L	0.704	1.00
110_N	113_K	0.703	1.00
186_Y	193_M	0.702	1.00
120_E	124_R	0.700	1.00
91_T	354_D	0.699	1.00
127_N	132_R	0.695	1.00
90_T	354_D	0.694	1.00
85_V	370_V	0.693	1.00
17_G	347_I	0.691	1.00
295_L	334_N	0.691	1.00
55_H	301_D	0.690	1.00
19_L	29_F	0.686	1.00
346_V	349_E	0.684	1.00
304_P	309_D	0.683	1.00
227_A	249_E	0.683	1.00
258_E	261_R	0.680	1.00
57_D	250_F	0.680	1.00
305_A	308_L	0.679	1.00
11_E	346_V	0.677	1.00
111_L	114_M	0.677	1.00
58_N	80_H	0.677	1.00
10_L	13_E	0.672	1.00
114_M	118_I	0.670	1.00
114_M	119_E	0.669	1.00
336_A	345_G	0.666	1.00
191_A	195_Q	0.666	1.00
58_N	92_V	0.665	1.00
190_D	197_E	0.664	1.00
217_A	220_R	0.663	1.00
95_A	227_A	0.663	1.00
238_A	242_Q	0.662	1.00
175_R	181_Y	0.662	1.00
128_R	132_R	0.659	1.00
267_V	294_L	0.658	1.00
216_A	220_R	0.657	1.00
283_N	287_S	0.649	1.00
333_K	342_Q	0.648	1.00
14_V	325_P	0.646	1.00
28_A	33_Q	0.645	1.00
119_E	123_K	0.645	1.00
309_D	313_R	0.644	1.00
261_R	264_G	0.643	1.00
6_V	355_L	0.641	1.00
21_V	27_R	0.640	1.00
185_K	190_D	0.637	1.00
344_R	351_K	0.634	1.00
26_I	351_K	0.633	1.00
178_Y	184_G	0.633	1.00
128_R	134_H	0.633	1.00
150_K	154_R	0.633	1.00
266_N	297_I	0.633	1.00
238_A	241_H	0.632	1.00
17_G	32_S	0.630	1.00
143_T	146_P	0.628	1.00
12_N	348_G	0.628	1.00
112_E	121_T	0.627	1.00
51_L	328_V	0.627	1.00
119_E	124_R	0.625	1.00
281_S	284_V	0.624	1.00
192_Q	198_E	0.623	1.00
277_G	282_G	0.622	1.00
249_E	253_T	0.622	1.00
142_H	146_P	0.621	1.00
145_L	148_F	0.620	1.00
134_H	138_E	0.617	1.00
148_F	151_L	0.614	1.00
74_H	77_M	0.613	1.00
110_N	118_I	0.612	1.00
149_E	153_Q	0.611	1.00
260_S	265_M	0.610	1.00
185_K	188_L	0.609	1.00
303_Y	312_F	0.608	1.00
134_H	140_P	0.602	1.00
108_L	111_L	0.602	1.00
308_L	314_V	0.601	1.00
188_L	193_M	0.600	1.00
195_Q	198_E	0.594	1.00
307_L	313_R	0.588	1.00
277_G	281_S	0.588	1.00
115_I	120_E	0.584	1.00
112_E	118_I	0.580	1.00
146_P	149_E	0.577	1.00
267_V	289_L	0.575	1.00
78_S	81_D	0.574	1.00
177_K	182_Y	0.573	1.00
51_L	367_I	0.573	1.00
10_L	15_V	0.572	1.00
174_N	178_Y	0.572	1.00
233_T	237_V	0.570	1.00
131_H	137_C	0.568	1.00
236_H	239_E	0.568	1.00
196_Y	200_Q	0.567	1.00
77_M	81_D	0.566	1.00
241_H	296_D	0.566	1.00
107_R	118_I	0.565	1.00
179_R	221_A	0.565	1.00
185_K	192_Q	0.565	1.00
112_E	119_E	0.563	1.00
114_M	117_A	0.562	1.00
183_Q	222_R	0.561	1.00
185_K	191_A	0.561	1.00
106_D	109_E	0.561	1.00
282_G	285_A	0.560	1.00
11_E	325_P	0.560	1.00
108_L	118_I	0.559	1.00
342_Q	346_V	0.558	1.00
131_H	136_R	0.558	1.00
234_H	241_H	0.557	1.00
298_L	301_D	0.556	1.00
18_S	29_F	0.553	1.00
19_L	26_I	0.552	1.00
313_R	316_D	0.549	1.00
336_A	351_K	0.547	1.00
11_E	329_K	0.547	1.00
216_A	226_L	0.544	1.00
231_D	234_H	0.543	1.00
134_H	139_L	0.543	1.00
254_F	292_L	0.541	1.00
298_L	331_V	0.540	1.00
296_D	330_L	0.540	1.00
261_R	292_L	0.538	1.00
246_V	338_A	0.537	1.00
25_E	343_D	0.535	1.00
114_M	122_Q	0.534	1.00
9_V	325_P	0.534	1.00
130_E	136_R	0.533	1.00
234_H	237_V	0.533	1.00
46_W	324_L	0.531	1.00
231_D	235_A	0.531	1.00
306_S	314_V	0.530	1.00
193_M	198_E	0.530	1.00
264_G	295_L	0.529	1.00
109_E	112_E	0.529	1.00
143_T	147_L	0.529	1.00
195_Q	199_E	0.529	1.00
6_V	44_G	0.529	1.00
143_T	148_F	0.526	1.00
83_L	87_S	0.525	1.00
270_G	274_I	0.525	1.00
4_N	32_S	0.524	1.00
141_H	144_T	0.524	1.00
90_T	370_V	0.524	1.00
322_F	327_A	0.523	1.00
11_E	15_V	0.523	1.00
13_E	16_S	0.522	1.00
204_A	207_W	0.522	1.00
373_Q	376_R	0.522	1.00
114_M	123_K	0.520	1.00
76_A	80_H	0.518	1.00
260_S	264_G	0.517	1.00
50_G	354_D	0.516	1.00
315_A	327_A	0.516	1.00
304_P	312_F	0.515	1.00
304_P	314_V	0.514	1.00
127_N	135_L	0.514	1.00
139_L	143_T	0.514	1.00
211_N	214_S	0.513	1.00
291_Q	326_Q	0.512	1.00
188_L	191_A	0.512	1.00
46_W	358_A	0.511	1.00
129_A	136_R	0.511	1.00
7_K	360_R	0.510	1.00
244_G	247_I	0.510	1.00
135_L	139_L	0.510	1.00
179_R	182_Y	0.510	1.00
255_E	259_A	0.508	1.00
106_D	118_I	0.508	1.00
211_N	215_I	0.503	1.00
174_N	181_Y	0.503	1.00
10_L	14_V	0.503	1.00
248_A	260_S	0.503	1.00
183_Q	187_S	0.502	1.00
230_D	236_H	0.501	1.00
269_M	272_P	0.501	1.00
136_R	140_P	0.501	1.00
219_C	224_I	0.501	1.00
149_E	152_V	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
3ls9A	2	0.9233	100	0.34	Contact Map
2bb0A	2	0.8968	100	0.342	Contact Map
4whbE	3	0.9444	100	0.342	Contact Map
4ub9A	4	0.9656	100	0.344	Contact Map
2p9bA	1	0.8677	100	0.347	Contact Map
3be7A	5	0.918	100	0.349	Contact Map
3lnpA	2	0.881	100	0.349	Contact Map
4dzhA	2	0.8757	100	0.351	Contact Map
4v1xA	5	0.9497	100	0.352	Contact Map
3hpaA	2	0.8677	100	0.352	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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