IADA - ECOLI - GREMLIN Contacts

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IADA - Isoaspartyl dipeptidase

UniProt:	P39377	Sequences: MIDYTAAGFTLLQGAHLYAPEDRGICDVLVANGKIIAVASNIPSDIVPNCTVVDLSGQILCPGFIDQHVHLIGGGGEAGPTTRTPEVALSRLTEAGVTSVVGLLGTDSISRHPESLLAKTRALNEEGISAWMLTGAYHVPSRTITGSVEKDVAIIDRVIGVKCAISDHRSAAPDVYHLANMAAESRVGGLLGGKPGVTVFHMGDSKKALQPIYDLLENCDVPISKLLPTHVNRNVPLFEQALEFARKGGTIDITSSIDEPVAPAEGIARAVQAGIPLARVTLSSDGNGSQPFFDDEGNLTHIGVAGFETLLETVQVLVKDYDFSISDALRPLTSSVAGFLNLTGKGEILPGNDADLLVMTPELRIEQVYARGKLMVKDGKACVKGTFETA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12567
Length:	390 (342)
Sequences:	34882 (28054)
Seq/√Len:	1517.0

ECOLI - IADA GUAD SSNA CODA YAHJ ALLB PHNM PHYDA NAGA ADEC
BACSU - ALLB NAGA PYRC HUTI ADEC YTCJ YERA
HALSA - MTAD Q9HQE0 HUTI PYRC Q9HNZ2 Q9HHS1
SULSO - Q97VT3 Q97WS6 Q7LXN1 Q97V65 Q97W09 Q97XD4 Q97VF3 Q980B7 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
369_Y	374_L	4.828	1.00
347_E	352_N	4.483	1.00
12_L	55_L	4.102	1.00
58_Q	366_E	3.879	1.00
31_A	36_I	3.692	1.00
367_Q	374_L	3.642	1.00
61_C	359_M	3.355	1.00
55_L	358_V	3.327	1.00
15_A	55_L	3.143	1.00
345_K	353_D	3.121	1.00
324_S	327_D	3.120	1.00
349_L	352_N	2.982	1.00
63_G	98_T	2.743	1.00
13_Q	52_V	2.705	1.00
268_A	272_Q	2.705	1.00
37_A	350_P	2.629	1.00
353_D	371_R	2.509	1.00
342_L	345_K	2.509	1.00
61_C	357_L	2.440	1.00
33_G	353_D	2.355	1.00
11_L	29_L	2.353	1.00
39_A	42_I	2.149	1.00
51_T	377_K	2.107	1.00
330_R	334_S	2.091	1.00
28_V	60_L	2.089	1.00
348_I	356_L	2.067	1.00
34_K	353_D	2.020	1.00
60_L	358_V	1.983	1.00
327_D	330_R	1.979	1.00
58_Q	360_T	1.975	1.00
356_L	369_Y	1.967	1.00
279_R	338_G	1.951	1.00
10_T	369_Y	1.948	1.00
30_V	356_L	1.945	1.00
360_T	366_E	1.916	1.00
27_D	42_I	1.893	1.00
368_V	376_V	1.889	1.00
60_L	356_L	1.875	1.00
94_E	376_V	1.848	1.00
58_Q	358_V	1.837	1.00
33_G	371_R	1.835	1.00
15_A	60_L	1.804	1.00
93_T	375_M	1.786	1.00
14_G	54_D	1.752	1.00
17_L	26_C	1.740	1.00
334_S	347_E	1.739	1.00
254_T	257_I	1.712	1.00
29_L	50_C	1.704	1.00
374_L	377_K	1.691	1.00
357_L	365_I	1.684	1.00
338_G	343_T	1.675	1.00
21_E	349_L	1.672	1.00
13_Q	27_D	1.660	1.00
151_D	154_I	1.583	1.00
61_C	64_F	1.582	1.00
225_K	249_G	1.570	1.00
232_N	235_V	1.554	1.00
330_R	335_S	1.527	1.00
23_R	26_C	1.519	1.00
35_I	348_I	1.515	1.00
12_L	30_V	1.504	1.00
163_C	168_H	1.496	1.00
28_V	348_I	1.492	1.00
27_D	44_S	1.481	1.00
29_L	37_A	1.476	1.00
329_L	333_T	1.469	1.00
334_S	338_G	1.457	1.00
155_I	159_I	1.453	1.00
10_T	30_V	1.432	1.00
11_L	27_D	1.420	1.00
270_A	275_I	1.414	1.00
344_G	352_N	1.410	1.00
335_S	338_G	1.405	1.00
367_Q	377_K	1.400	1.00
184_E	193_G	1.382	1.00
28_V	356_L	1.376	1.00
233_R	236_P	1.370	1.00
155_I	158_V	1.359	1.00
254_T	258_D	1.352	1.00
266_G	269_R	1.350	1.00
240_Q	243_E	1.347	1.00
117_L	121_R	1.342	1.00
282_L	285_D	1.337	1.00
358_V	369_Y	1.326	1.00
281_T	284_S	1.325	1.00
252_D	256_S	1.320	1.00
14_G	57_G	1.318	1.00
38_V	350_P	1.313	1.00
118_A	121_R	1.307	1.00
180_N	183_A	1.295	1.00
27_D	41_N	1.288	1.00
318_V	328_A	1.287	1.00
338_G	347_E	1.280	1.00
55_L	60_L	1.266	1.00
163_C	167_D	1.260	1.00
26_C	40_S	1.254	1.00
175_V	179_A	1.247	1.00
67_Q	336_V	1.241	1.00
213_Y	217_E	1.229	1.00
231_V	234_N	1.222	1.00
232_N	236_P	1.219	1.00
241_A	245_A	1.215	1.00
359_M	365_I	1.201	1.00
253_I	257_I	1.201	1.00
208_A	211_P	1.200	1.00
20_P	334_S	1.194	1.00
271_V	327_D	1.184	1.00
253_I	256_S	1.184	1.00
154_I	157_R	1.183	1.00
243_E	246_R	1.181	1.00
65_I	99_S	1.176	1.00
16_H	24_G	1.175	1.00
19_A	22_D	1.170	1.00
358_V	367_Q	1.162	1.00
61_C	329_L	1.160	1.00
12_L	356_L	1.156	1.00
15_A	358_V	1.154	1.00
243_E	273_A	1.151	1.00
92_L	100_V	1.148	1.00
239_E	243_E	1.147	1.00
17_L	28_V	1.144	1.00
26_C	39_A	1.143	1.00
29_L	36_I	1.136	1.00
65_I	336_V	1.135	1.00
14_G	25_I	1.135	1.00
269_R	273_A	1.133	1.00
239_E	269_R	1.132	1.00
174_D	177_H	1.132	1.00
370_A	375_M	1.132	1.00
14_G	56_S	1.130	1.00
207_K	211_P	1.126	1.00
252_D	255_S	1.125	1.00
151_D	155_I	1.116	1.00
360_T	364_R	1.114	1.00
306_G	309_T	1.112	1.00
16_H	23_R	1.112	1.00
30_V	369_Y	1.099	1.00
101_V	340_L	1.096	1.00
16_H	25_I	1.093	1.00
59_I	361_P	1.092	1.00
281_T	339_F	1.088	1.00
211_P	214_D	1.087	1.00
150_K	153_A	1.082	1.00
269_R	272_Q	1.082	1.00
51_T	374_L	1.080	1.00
67_Q	340_L	1.075	1.00
250_T	254_T	1.062	1.00
129_S	132_M	1.059	1.00
152_V	155_I	1.058	1.00
12_L	369_Y	1.052	1.00
308_E	313_T	1.048	1.00
250_T	257_I	1.046	1.00
239_E	242_L	1.043	1.00
36_I	350_P	1.042	1.00
176_Y	179_A	1.038	1.00
306_G	313_T	1.035	1.00
89_L	93_T	1.033	1.00
246_R	273_A	1.031	1.00
343_T	352_N	1.030	1.00
27_D	43_P	1.028	1.00
331_P	335_S	1.027	1.00
67_Q	281_T	1.016	1.00
18_Y	329_L	1.015	1.00
173_P	177_H	1.015	1.00
27_D	39_A	1.013	1.00
275_I	279_R	1.011	1.00
150_K	154_I	1.010	1.00
250_T	256_S	1.009	1.00
252_D	257_I	1.006	1.00
255_S	258_D	1.005	1.00
178_L	181_M	1.004	1.00
158_V	161_V	1.003	1.00
210_Q	214_D	0.999	1.00
248_G	254_T	0.998	1.00
168_H	171_A	0.997	1.00
121_R	125_E	0.996	1.00
127_G	130_A	0.996	1.00
39_A	43_P	0.994	1.00
26_C	38_V	0.993	1.00
260_P	263_P	0.989	1.00
145_T	149_E	0.987	1.00
205_S	209_L	0.986	1.00
304_V	309_T	0.984	1.00
242_L	246_R	0.983	1.00
99_S	345_K	0.981	1.00
261_V	265_E	0.979	1.00
177_H	180_N	0.978	1.00
309_T	313_T	0.973	1.00
153_A	156_D	0.973	1.00
154_I	158_V	0.970	1.00
10_T	51_T	0.970	1.00
53_V	369_Y	0.965	1.00
334_S	352_N	0.959	1.00
65_I	345_K	0.955	1.00
35_I	356_L	0.954	1.00
281_T	336_V	0.954	1.00
279_R	282_L	0.953	1.00
238_F	241_A	0.952	1.00
251_I	254_T	0.952	1.00
306_G	310_L	0.952	1.00
305_A	308_E	0.951	1.00
156_D	160_G	0.945	1.00
323_F	331_P	0.945	1.00
179_A	183_A	0.941	1.00
261_V	264_A	0.931	1.00
241_A	244_F	0.928	1.00
65_I	340_L	0.914	1.00
118_A	122_A	0.912	1.00
153_A	157_R	0.911	1.00
307_F	311_L	0.907	1.00
279_R	284_S	0.906	1.00
151_D	158_V	0.905	1.00
307_F	310_L	0.902	1.00
232_N	237_L	0.900	1.00
357_L	368_V	0.896	1.00
157_R	160_G	0.896	1.00
332_L	336_V	0.896	1.00
37_A	44_S	0.894	1.00
37_A	43_P	0.890	1.00
250_T	253_I	0.888	1.00
16_H	59_I	0.886	1.00
156_D	159_I	0.882	1.00
201_H	204_D	0.881	1.00
65_I	337_A	0.880	1.00
10_T	53_V	0.879	1.00
12_L	53_V	0.878	1.00
140_P	143_T	0.876	1.00
53_V	367_Q	0.876	1.00
205_S	208_A	0.874	1.00
345_K	355_D	0.873	1.00
197_V	341_N	0.868	1.00
176_Y	180_N	0.866	1.00
154_I	159_I	0.865	1.00
249_G	254_T	0.864	1.00
82_T	86_E	0.861	1.00
49_N	52_V	0.860	1.00
29_L	49_N	0.858	1.00
12_L	60_L	0.856	1.00
157_R	161_V	0.852	1.00
316_V	319_K	0.852	1.00
122_A	125_E	0.848	1.00
93_T	370_A	0.847	1.00
242_L	245_A	0.843	1.00
175_V	181_M	0.842	1.00
308_E	311_L	0.841	1.00
93_T	368_V	0.841	1.00
40_S	43_P	0.841	1.00
310_L	332_L	0.838	1.00
166_S	170_S	0.837	1.00
304_V	307_F	0.837	1.00
222_P	226_L	0.836	1.00
151_D	156_D	0.835	1.00
91_R	94_E	0.835	1.00
311_L	315_Q	0.829	1.00
163_C	169_R	0.829	1.00
197_V	201_H	0.826	1.00
304_V	308_E	0.824	1.00
13_Q	54_D	0.824	1.00
155_I	160_G	0.823	1.00
251_I	256_S	0.822	1.00
145_T	148_V	0.817	1.00
167_D	171_A	0.814	1.00
248_G	257_I	0.813	1.00
281_T	335_S	0.811	1.00
69_V	92_L	0.809	1.00
71_L	88_A	0.808	1.00
143_T	146_G	0.807	1.00
253_I	258_D	0.805	1.00
18_Y	59_I	0.798	1.00
252_D	339_F	0.797	1.00
29_L	39_A	0.797	1.00
249_G	253_I	0.796	1.00
41_N	44_S	0.794	1.00
90_S	94_E	0.794	1.00
123_L	126_E	0.794	1.00
206_K	210_Q	0.794	1.00
98_T	355_D	0.790	1.00
151_D	157_R	0.787	1.00
10_T	50_C	0.784	1.00
269_R	321_Y	0.783	1.00
175_V	178_L	0.781	1.00
165_I	169_R	0.780	1.00
114_E	117_L	0.780	1.00
251_I	257_I	0.778	1.00
152_V	158_V	0.775	1.00
169_R	172_A	0.775	1.00
177_H	181_M	0.772	1.00
365_I	368_V	0.771	1.00
86_E	90_S	0.771	1.00
249_G	252_D	0.771	1.00
64_F	332_L	0.769	1.00
310_L	314_V	0.767	1.00
209_L	213_Y	0.766	1.00
174_D	181_M	0.763	1.00
208_A	212_I	0.761	1.00
70_H	235_V	0.759	1.00
93_T	376_V	0.759	1.00
14_G	55_L	0.758	1.00
42_I	45_D	0.755	1.00
251_I	255_S	0.755	1.00
308_E	314_V	0.752	1.00
134_T	137_Y	0.752	1.00
173_P	181_M	0.751	1.00
237_L	242_L	0.749	1.00
249_G	257_I	0.749	1.00
163_C	166_S	0.745	1.00
228_P	235_V	0.742	1.00
305_A	309_T	0.741	1.00
228_P	233_R	0.741	1.00
71_L	100_V	0.738	1.00
280_V	284_S	0.738	1.00
311_L	314_V	0.738	1.00
316_V	320_D	0.736	1.00
168_H	172_A	0.732	1.00
262_A	265_E	0.731	1.00
98_T	368_V	0.729	1.00
223_I	226_L	0.729	1.00
355_D	371_R	0.728	1.00
166_S	171_A	0.728	1.00
218_N	226_L	0.726	1.00
200_F	203_G	0.723	1.00
58_Q	367_Q	0.722	1.00
309_T	312_E	0.722	1.00
136_A	140_P	0.722	1.00
239_E	245_A	0.721	1.00
173_P	176_Y	0.721	1.00
156_D	161_V	0.721	1.00
18_Y	23_R	0.718	1.00
305_A	311_L	0.717	1.00
166_S	169_R	0.716	1.00
212_I	216_L	0.714	1.00
20_P	329_L	0.709	1.00
279_R	285_D	0.708	1.00
123_L	130_A	0.705	1.00
246_R	275_I	0.703	1.00
237_L	240_Q	0.701	1.00
99_S	355_D	0.700	1.00
155_I	161_V	0.700	1.00
242_L	273_A	0.698	1.00
281_T	285_D	0.694	1.00
16_H	362_E	0.692	1.00
146_G	149_E	0.691	1.00
55_L	58_Q	0.689	1.00
306_G	311_L	0.689	1.00
39_A	44_S	0.684	1.00
141_S	144_I	0.683	1.00
304_V	313_T	0.679	1.00
337_A	346_G	0.679	1.00
259_E	262_A	0.678	1.00
71_L	89_L	0.676	1.00
26_C	348_I	0.675	1.00
21_E	347_E	0.675	1.00
151_D	159_I	0.674	1.00
264_A	268_A	0.674	1.00
127_G	131_W	0.674	1.00
196_G	201_H	0.674	1.00
134_T	138_H	0.669	1.00
209_L	212_I	0.668	1.00
29_L	42_I	0.667	1.00
23_R	326_S	0.662	1.00
177_H	182_A	0.662	1.00
326_S	330_R	0.662	1.00
25_I	56_S	0.661	1.00
211_P	215_L	0.659	1.00
279_R	335_S	0.657	1.00
66_D	69_V	0.656	1.00
315_Q	319_K	0.656	1.00
249_G	256_S	0.656	1.00
128_I	131_W	0.656	1.00
237_L	241_A	0.655	1.00
313_T	317_L	0.653	1.00
252_D	258_D	0.653	1.00
234_N	237_L	0.652	1.00
25_I	41_N	0.650	1.00
207_K	210_Q	0.650	1.00
307_F	313_T	0.649	1.00
93_T	129_S	0.648	1.00
133_L	137_Y	0.645	1.00
28_V	38_V	0.645	1.00
15_A	57_G	0.643	1.00
70_H	201_H	0.643	1.00
185_S	198_T	0.643	1.00
123_L	128_I	0.642	1.00
182_A	186_R	0.642	1.00
347_E	350_P	0.640	1.00
87_V	90_S	0.637	1.00
20_P	347_E	0.636	1.00
97_V	310_L	0.636	1.00
249_G	255_S	0.635	1.00
268_A	271_V	0.633	1.00
305_A	310_L	0.633	1.00
314_V	332_L	0.629	1.00
221_V	224_S	0.628	1.00
27_D	37_A	0.628	1.00
334_S	343_T	0.627	1.00
230_H	233_R	0.626	1.00
305_A	312_E	0.626	1.00
17_L	24_G	0.625	1.00
163_C	171_A	0.624	1.00
247_K	250_T	0.624	1.00
125_E	128_I	0.624	1.00
127_G	132_M	0.621	1.00
313_T	316_V	0.620	1.00
210_Q	213_Y	0.619	1.00
310_L	313_T	0.617	1.00
220_D	224_S	0.616	1.00
283_S	286_G	0.615	1.00
115_S	119_K	0.613	1.00
20_P	326_S	0.612	1.00
164_A	168_H	0.610	1.00
345_K	352_N	0.610	1.00
229_T	235_V	0.610	1.00
138_H	141_S	0.607	1.00
150_K	155_I	0.607	1.00
308_E	312_E	0.603	1.00
231_V	235_V	0.603	1.00
81_T	84_T	0.601	1.00
70_H	285_D	0.600	1.00
30_V	36_I	0.600	1.00
162_K	167_D	0.596	1.00
174_D	180_N	0.593	1.00
232_N	254_T	0.593	1.00
304_V	311_L	0.592	1.00
241_A	246_R	0.592	1.00
130_A	133_L	0.591	1.00
176_Y	181_M	0.589	1.00
129_S	133_L	0.586	1.00
64_F	329_L	0.585	1.00
309_T	314_V	0.584	1.00
163_C	170_S	0.583	1.00
239_E	266_G	0.582	1.00
248_G	252_D	0.581	1.00
11_L	44_S	0.578	1.00
214_D	217_E	0.577	1.00
26_C	41_N	0.577	1.00
19_A	23_R	0.575	1.00
129_S	345_K	0.575	1.00
186_R	221_V	0.574	1.00
15_A	356_L	0.574	1.00
13_Q	41_N	0.572	1.00
314_V	328_A	0.572	1.00
271_V	274_G	0.572	1.00
152_V	156_D	0.571	1.00
11_L	50_C	0.569	1.00
223_I	227_L	0.569	1.00
165_I	171_A	0.568	1.00
250_T	255_S	0.568	1.00
260_P	264_A	0.567	1.00
184_E	194_K	0.567	1.00
114_E	118_A	0.567	1.00
141_S	145_T	0.566	1.00
35_I	352_N	0.564	1.00
37_A	42_I	0.563	1.00
233_R	237_L	0.559	1.00
306_G	312_E	0.558	1.00
286_G	289_S	0.556	1.00
219_C	225_K	0.555	1.00
113_P	117_L	0.550	1.00
315_Q	318_V	0.548	1.00
121_R	124_N	0.548	1.00
248_G	256_S	0.546	1.00
167_D	170_S	0.545	1.00
117_L	120_T	0.544	1.00
247_K	279_R	0.544	1.00
228_P	232_N	0.542	1.00
247_K	257_I	0.540	1.00
68_H	201_H	0.539	1.00
16_H	361_P	0.537	1.00
11_L	52_V	0.537	1.00
20_P	330_R	0.535	1.00
371_R	374_L	0.535	1.00
133_L	136_A	0.532	1.00
229_T	233_R	0.531	1.00
226_L	229_T	0.530	1.00
175_V	182_A	0.530	1.00
307_F	312_E	0.529	1.00
82_T	118_A	0.529	1.00
205_S	212_I	0.528	1.00
343_T	347_E	0.527	1.00
220_D	226_L	0.527	1.00
174_D	178_L	0.526	1.00
137_Y	140_P	0.525	1.00
174_D	184_E	0.524	1.00
250_T	279_R	0.524	1.00
103_L	199_V	0.524	1.00
68_H	235_V	0.522	1.00
242_L	270_A	0.522	1.00
304_V	310_L	0.521	1.00
11_L	49_N	0.521	1.00
134_T	140_P	0.521	1.00
229_T	232_N	0.521	1.00
162_K	168_H	0.516	1.00
353_D	370_A	0.514	1.00
67_Q	339_F	0.511	1.00
28_V	35_I	0.511	1.00
142_R	146_G	0.509	1.00
323_F	328_A	0.509	1.00
64_F	357_L	0.509	1.00
256_S	259_E	0.509	1.00
261_V	266_G	0.506	1.00
218_N	222_P	0.505	1.00
144_I	148_V	0.505	1.00
367_Q	376_V	0.505	1.00
163_C	172_A	0.505	1.00
356_L	374_L	0.503	1.00
22_D	326_S	0.503	1.00
175_V	180_N	0.503	1.00
120_T	123_L	0.503	1.00
150_K	159_I	0.502	1.00
135_G	138_H	0.502	1.00
112_H	115_S	0.501	1.00
224_S	227_L	0.500	1.00
265_E	269_R	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
1onwA	5	0.9744	100	0.328	Contact Map
2pajA	2	0.8641	100	0.345	Contact Map
3ls9A	2	0.9051	100	0.346	Contact Map
4dzhA	2	0.8949	100	0.35	Contact Map
3lnpA	2	0.9077	100	0.355	Contact Map
3hpaA	2	0.8744	100	0.362	Contact Map
4gbdA	2	0.8974	100	0.364	Contact Map
2ftwA	3	0.9487	100	0.37	Contact Map
4v1xA	5	0.8974	100	0.371	Contact Map
3griA	1	0.8974	100	0.371	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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