AMPH - ECOLI - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

AMPH - D-alanyl-D-alanine-carboxypeptidase/endopeptidase AmpH

UniProt:	P0AD70	Sequences: MKRSLLFSAVLCAASLTSVHAAQPITEPEFASDIVDRYADHIFYGSGATGMALVVIDGNQRVFRSYGETRPGNNVRPQLDSVVRIASLTKLMTSEMLVKLLDQGTVKLNDPLSKYAPPGARVPTYNGTPITLVNLATHTSALPREQPGGAAHRPVFVWPTREQRWKYLSTAKLKAAPGSQAAYSNLAFDLLADALANASGKPYTQLFEEQITRPLGMKDTTYTPSPDQCRRLMVAERGASPCNNTLAAIGSGGVYSTPGDMMRWMQQYLSSDFYQRSNQADRMQTLIYQRAQFTKVIGMDVPGKADALGLGWVYMAPKEGRPGIIQKTGGGGGFITYMAMIPQKNIGAFVVVTRSPLTRFKNMSDGINDLVTELSGNKPLVIPAS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12867
Length:	385 (318)
Sequences:	15322 (11981)
Seq/√Len:	671.9

ECOLI - AMPH YFEW AMPC
BACSU - PBPE YBBE PBPX

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
201_K	209_E	3.716	1.00
103_Q	210_Q	3.414	1.00
58_G	345_N	3.328	1.00
208_E	213_R	3.198	1.00
110_D	114_K	3.041	1.00
99_K	210_Q	3.039	1.00
96_M	206_L	2.945	1.00
107_K	110_D	2.935	1.00
109_N	133_V	2.883	1.00
77_P	83_V	2.592	1.00
85_I	256_S	2.571	1.00
202_P	205_Q	2.418	1.00
110_D	115_Y	2.412	1.00
99_K	206_L	2.372	1.00
206_L	210_Q	2.361	1.00
70_R	73_N	2.313	1.00
65_S	79_L	2.303	1.00
95_E	264_W	2.284	1.00
36_D	64_R	2.284	1.00
54_V	262_M	2.267	1.00
193_D	197_N	2.213	1.00
195_L	206_L	2.199	1.00
199_S	206_L	2.157	1.00
102_D	281_D	2.151	1.00
63_F	259_G	2.134	1.00
220_T	256_S	2.091	1.00
281_D	284_Q	2.055	1.00
69_T	75_V	2.017	1.00
91_L	264_W	2.010	1.00
99_K	103_Q	1.980	1.00
96_M	207_F	1.953	1.00
81_S	233_M	1.906	1.00
193_D	196_A	1.903	1.00
68_E	74_N	1.876	1.00
102_D	284_Q	1.865	1.00
265_M	338_M	1.863	1.00
201_K	206_L	1.852	1.00
192_A	250_G	1.851	1.00
118_P	197_N	1.848	1.00
265_M	347_G	1.826	1.00
341_I	344_K	1.806	1.00
87_S	90_K	1.801	1.00
209_E	213_R	1.765	1.00
207_F	212_T	1.757	1.00
111_P	114_K	1.755	1.00
175_A	180_Q	1.726	1.00
287_I	290_R	1.693	1.00
131_T	134_N	1.690	1.00
56_I	262_M	1.678	1.00
92_M	254_V	1.666	1.00
205_Q	209_E	1.662	1.00
217_M	220_T	1.661	1.00
323_G	343_Q	1.640	1.00
201_K	205_Q	1.630	1.00
40_D	44_Y	1.580	1.00
160_T	163_Q	1.577	1.00
36_D	40_D	1.575	1.00
97_L	106_V	1.566	1.00
52_A	258_P	1.555	1.00
201_K	210_Q	1.546	1.00
100_L	195_L	1.517	1.00
203_Y	250_G	1.511	1.00
132_L	194_A	1.510	1.00
134_N	178_G	1.507	1.00
78_Q	81_S	1.497	1.00
133_V	310_L	1.487	1.00
86_A	331_G	1.479	1.00
56_I	347_G	1.472	1.00
101_L	108_L	1.463	1.00
79_L	259_G	1.452	1.00
97_L	191_L	1.448	1.00
62_V	66_Y	1.446	1.00
100_L	199_S	1.445	1.00
54_V	258_P	1.433	1.00
80_D	259_G	1.419	1.00
212_T	217_M	1.404	1.00
133_V	292_Q	1.401	1.00
41_H	45_G	1.397	1.00
203_Y	207_F	1.392	1.00
97_L	136_A	1.390	1.00
92_M	264_W	1.390	1.00
137_T	292_Q	1.380	1.00
98_V	101_L	1.376	1.00
162_E	166_K	1.361	1.00
57_D	346_I	1.358	1.00
219_D	231_R	1.351	1.00
97_L	195_L	1.346	1.00
134_N	139_T	1.338	1.00
36_D	66_Y	1.330	1.00
268_Y	289_Q	1.327	1.00
57_D	60_Q	1.324	1.00
98_V	108_L	1.320	1.00
63_F	79_L	1.315	1.00
282_R	286_L	1.312	1.00
140_S	187_A	1.312	1.00
105_T	198_A	1.305	1.00
133_V	287_I	1.293	1.00
266_Q	269_L	1.292	1.00
94_S	136_A	1.278	1.00
50_G	77_P	1.276	1.00
95_E	268_Y	1.270	1.00
69_T	81_S	1.260	1.00
340_M	347_G	1.259	1.00
68_E	73_N	1.255	1.00
88_L	261_M	1.252	1.00
90_K	183_Y	1.247	1.00
94_S	188_F	1.237	1.00
100_L	105_T	1.226	1.00
111_P	129_P	1.226	1.00
185_N	251_S	1.220	1.00
88_L	338_M	1.211	1.00
309_G	314_Y	1.209	1.00
101_L	106_V	1.207	1.00
85_I	89_T	1.204	1.00
129_P	176_A	1.203	1.00
52_A	77_P	1.200	1.00
77_P	81_S	1.199	1.00
217_M	260_D	1.199	1.00
220_T	260_D	1.196	1.00
65_S	77_P	1.194	1.00
330_G	335_I	1.189	1.00
88_L	336_T	1.186	1.00
92_M	207_F	1.177	1.00
175_A	179_S	1.173	1.00
217_M	264_W	1.173	1.00
98_V	284_Q	1.171	1.00
36_D	62_V	1.169	1.00
261_M	351_V	1.169	1.00
176_A	179_S	1.167	1.00
215_L	267_Q	1.162	1.00
52_A	65_S	1.162	1.00
271_S	286_L	1.159	1.00
93_T	250_G	1.135	1.00
222_Y	254_V	1.127	1.00
134_N	137_T	1.124	1.00
212_T	254_V	1.122	1.00
269_L	340_M	1.121	1.00
101_L	287_I	1.117	1.00
37_R	41_H	1.116	1.00
89_T	254_V	1.107	1.00
184_S	187_A	1.104	1.00
308_L	313_V	1.098	1.00
87_S	183_Y	1.096	1.00
163_Q	166_K	1.094	1.00
235_A	334_F	1.082	1.00
115_Y	198_A	1.079	1.00
204_T	248_A	1.074	1.00
68_E	76_R	1.065	1.00
175_A	182_A	1.065	1.00
266_Q	270_S	1.053	1.00
92_M	217_M	1.053	1.00
50_G	83_V	1.052	1.00
106_V	198_A	1.043	1.00
93_T	203_Y	1.030	1.00
70_R	75_V	1.029	1.00
165_W	193_D	1.028	1.00
96_M	195_L	1.021	1.00
96_M	210_Q	1.018	1.00
258_P	351_V	1.016	1.00
212_T	220_T	1.010	1.00
112_L	135_L	1.007	1.00
82_V	231_R	1.003	1.00
82_V	219_D	1.000	1.00
265_M	340_M	0.998	1.00
138_H	187_A	0.996	1.00
273_F	276_R	0.994	1.00
208_E	212_T	0.992	1.00
217_M	256_S	0.991	1.00
113_S	128_T	0.990	1.00
54_V	349_F	0.989	1.00
43_F	66_Y	0.986	1.00
289_Q	325_I	0.984	1.00
56_I	266_Q	0.982	1.00
53_L	350_V	0.980	1.00
267_Q	272_D	0.979	1.00
174_K	182_A	0.979	1.00
94_S	311_G	0.979	1.00
112_L	194_A	0.975	1.00
102_D	275_Q	0.971	1.00
84_R	255_Y	0.968	1.00
328_T	337_Y	0.965	1.00
205_Q	208_E	0.964	1.00
188_F	191_L	0.964	1.00
115_Y	194_A	0.963	1.00
99_K	279_Q	0.963	1.00
325_I	340_M	0.960	1.00
166_K	170_T	0.957	1.00
133_V	137_T	0.955	1.00
339_A	348_A	0.954	1.00
106_V	132_L	0.953	1.00
261_M	349_F	0.949	1.00
70_R	74_N	0.948	1.00
40_D	43_F	0.944	1.00
259_G	263_R	0.944	1.00
194_A	198_A	0.941	1.00
99_K	211_I	0.940	1.00
96_M	199_S	0.937	1.00
181_A	308_L	0.936	1.00
268_Y	288_Y	0.936	1.00
70_R	234_V	0.924	1.00
38_Y	42_I	0.920	1.00
110_D	132_L	0.918	1.00
100_L	103_Q	0.917	1.00
338_M	349_F	0.917	1.00
219_D	260_D	0.915	1.00
136_A	191_L	0.912	1.00
324_I	341_I	0.902	1.00
98_V	288_Y	0.900	1.00
95_E	280_A	0.897	1.00
216_G	263_R	0.896	1.00
271_S	282_R	0.895	1.00
40_D	66_Y	0.892	1.00
96_M	211_I	0.891	1.00
84_R	331_G	0.884	1.00
314_Y	323_G	0.883	1.00
192_A	203_Y	0.883	1.00
132_L	191_L	0.882	1.00
82_V	255_Y	0.881	1.00
188_F	311_G	0.881	1.00
285_T	289_Q	0.879	1.00
116_A	197_N	0.877	1.00
82_V	221_T	0.876	1.00
217_M	263_R	0.873	1.00
95_E	99_K	0.867	1.00
37_R	40_D	0.867	1.00
262_M	347_G	0.867	1.00
52_A	83_V	0.866	1.00
291_A	294_T	0.863	1.00
132_L	198_A	0.862	1.00
268_Y	312_W	0.860	1.00
285_T	288_Y	0.860	1.00
92_M	261_M	0.839	1.00
85_I	261_M	0.833	1.00
39_A	53_L	0.831	1.00
126_N	176_A	0.829	1.00
195_L	199_S	0.825	1.00
263_R	266_Q	0.824	1.00
196_A	199_S	0.823	1.00
196_A	202_P	0.822	1.00
116_A	194_A	0.818	1.00
101_L	284_Q	0.812	1.00
219_D	257_T	0.810	1.00
54_V	63_F	0.808	1.00
95_E	211_I	0.807	1.00
106_V	194_A	0.807	1.00
80_D	219_D	0.803	1.00
53_L	64_R	0.801	1.00
59_N	266_Q	0.799	1.00
291_A	307_A	0.799	1.00
263_R	274_Y	0.796	1.00
269_L	347_G	0.790	1.00
39_A	51_M	0.790	1.00
92_M	212_T	0.786	1.00
63_F	258_P	0.786	1.00
318_K	321_R	0.785	1.00
325_I	342_P	0.785	1.00
312_W	340_M	0.782	1.00
51_M	350_V	0.782	1.00
284_Q	288_Y	0.780	1.00
203_Y	222_Y	0.779	1.00
49_T	71_P	0.779	1.00
287_I	292_Q	0.776	1.00
40_D	64_R	0.775	1.00
195_L	203_Y	0.775	1.00
93_T	192_A	0.770	1.00
313_V	327_K	0.769	1.00
166_K	169_S	0.769	1.00
71_P	236_E	0.767	1.00
57_D	61_R	0.765	1.00
54_V	347_G	0.765	1.00
265_M	349_F	0.764	1.00
55_V	348_A	0.763	1.00
108_L	310_L	0.762	1.00
215_L	263_R	0.756	1.00
162_E	193_D	0.756	1.00
189_D	251_S	0.754	1.00
135_L	191_L	0.752	1.00
286_L	289_Q	0.752	1.00
139_T	178_G	0.745	1.00
118_P	166_K	0.744	1.00
107_K	132_L	0.744	1.00
109_N	131_T	0.743	1.00
33_D	37_R	0.743	1.00
161_R	193_D	0.742	1.00
51_M	352_V	0.741	1.00
115_Y	132_L	0.741	1.00
88_L	91_L	0.741	1.00
91_L	265_M	0.741	1.00
135_L	140_S	0.740	1.00
99_K	102_D	0.739	1.00
112_L	116_A	0.738	1.00
199_S	202_P	0.734	1.00
289_Q	342_P	0.734	1.00
134_N	177_P	0.733	1.00
101_L	107_K	0.733	1.00
283_M	286_L	0.732	1.00
258_P	262_M	0.731	1.00
33_D	36_D	0.731	1.00
53_L	62_V	0.729	1.00
308_L	312_W	0.727	1.00
116_A	193_D	0.723	1.00
100_L	198_A	0.722	1.00
257_T	260_D	0.718	1.00
163_Q	167_Y	0.717	1.00
262_M	349_F	0.716	1.00
91_L	312_W	0.711	1.00
303_G	306_D	0.710	1.00
157_V	163_Q	0.709	1.00
68_E	75_V	0.709	1.00
204_T	208_E	0.708	1.00
39_A	43_F	0.704	1.00
326_Q	339_A	0.702	1.00
75_V	81_S	0.702	1.00
130_I	142_L	0.701	1.00
262_M	266_Q	0.700	1.00
107_K	115_Y	0.697	1.00
199_S	210_Q	0.696	1.00
211_I	214_P	0.694	1.00
85_I	336_T	0.693	1.00
69_T	78_Q	0.691	1.00
138_H	188_F	0.690	1.00
239_A	242_C	0.689	1.00
280_A	285_T	0.688	1.00
43_F	51_M	0.688	1.00
96_M	99_K	0.687	1.00
286_L	290_R	0.682	1.00
34_I	37_R	0.682	1.00
225_S	228_Q	0.681	1.00
289_Q	312_W	0.677	1.00
31_A	34_I	0.676	1.00
270_S	273_F	0.670	1.00
272_D	276_R	0.670	1.00
130_I	140_S	0.669	1.00
105_T	199_S	0.668	1.00
91_L	338_M	0.666	1.00
68_E	71_P	0.664	1.00
82_V	257_T	0.663	1.00
49_T	354_R	0.655	1.00
83_V	351_V	0.655	1.00
221_T	224_P	0.653	1.00
85_I	88_L	0.651	1.00
314_Y	325_I	0.648	1.00
41_H	44_Y	0.647	1.00
90_K	185_N	0.645	1.00
307_A	314_Y	0.640	1.00
113_S	129_P	0.640	1.00
112_L	119_G	0.639	1.00
90_K	329_G	0.632	1.00
68_E	72_G	0.632	1.00
206_L	209_E	0.626	1.00
181_A	313_V	0.624	1.00
136_A	188_F	0.624	1.00
207_F	211_I	0.623	1.00
241_P	244_N	0.622	1.00
86_A	252_G	0.622	1.00
42_I	48_A	0.622	1.00
52_A	56_I	0.620	1.00
161_R	196_A	0.620	1.00
207_F	222_Y	0.619	1.00
39_A	66_Y	0.617	1.00
336_T	351_V	0.617	1.00
321_R	344_K	0.613	1.00
256_S	260_D	0.611	1.00
53_L	66_Y	0.611	1.00
228_Q	232_L	0.611	1.00
145_E	186_L	0.610	1.00
91_L	94_S	0.610	1.00
137_T	310_L	0.608	1.00
324_I	339_A	0.606	1.00
327_K	330_G	0.606	1.00
100_L	206_L	0.606	1.00
288_Y	312_W	0.602	1.00
107_K	114_K	0.601	1.00
267_Q	274_Y	0.601	1.00
207_F	254_V	0.600	1.00
78_Q	231_R	0.599	1.00
218_K	260_D	0.598	1.00
167_Y	170_T	0.595	1.00
89_T	253_G	0.594	1.00
274_Y	277_S	0.593	1.00
232_L	235_A	0.589	1.00
117_P	120_A	0.589	1.00
235_A	238_G	0.588	1.00
161_R	165_W	0.587	1.00
107_K	133_V	0.587	1.00
125_Y	128_T	0.587	1.00
127_G	130_I	0.587	1.00
233_M	236_E	0.586	1.00
112_L	190_L	0.586	1.00
86_A	334_F	0.585	1.00
38_Y	41_H	0.585	1.00
229_C	232_L	0.584	1.00
284_Q	287_I	0.583	1.00
139_T	181_A	0.578	1.00
144_R	186_L	0.578	1.00
260_D	263_R	0.578	1.00
267_Q	279_Q	0.576	1.00
101_L	110_D	0.576	1.00
271_S	285_T	0.576	1.00
270_S	345_N	0.576	1.00
159_P	163_Q	0.576	1.00
126_N	130_I	0.574	1.00
111_P	131_T	0.573	1.00
317_P	320_G	0.573	1.00
82_V	228_Q	0.572	1.00
272_D	285_T	0.572	1.00
256_S	261_M	0.572	1.00
258_P	349_F	0.569	1.00
136_A	310_L	0.567	1.00
161_R	164_R	0.567	1.00
269_L	345_N	0.566	1.00
266_Q	347_G	0.564	1.00
263_R	267_Q	0.563	1.00
194_A	197_N	0.563	1.00
97_L	132_L	0.560	1.00
113_S	120_A	0.560	1.00
85_I	220_T	0.559	1.00
273_F	277_S	0.557	1.00
87_S	185_N	0.557	1.00
111_P	115_Y	0.555	1.00
98_V	102_D	0.554	1.00
130_I	134_N	0.553	1.00
292_Q	310_L	0.552	1.00
317_P	321_R	0.551	1.00
143_P	171_A	0.550	1.00
55_V	346_I	0.545	1.00
87_S	329_G	0.544	1.00
86_A	330_G	0.544	1.00
326_Q	329_G	0.544	1.00
57_D	345_N	0.544	1.00
222_Y	249_I	0.543	1.00
85_I	92_M	0.542	1.00
143_P	174_K	0.542	1.00
118_P	193_D	0.541	1.00
196_A	203_Y	0.539	1.00
48_A	51_M	0.539	1.00
220_T	257_T	0.538	1.00
316_A	323_G	0.538	1.00
306_D	313_V	0.535	1.00
119_G	130_I	0.535	1.00
273_F	282_R	0.534	1.00
85_I	351_V	0.534	1.00
249_I	252_G	0.534	1.00
91_L	327_K	0.533	1.00
97_L	194_A	0.533	1.00
94_S	98_V	0.533	1.00
214_P	217_M	0.532	1.00
228_Q	231_R	0.532	1.00
50_G	67_G	0.531	1.00
52_A	351_V	0.528	1.00
113_S	127_G	0.528	1.00
90_K	327_K	0.527	1.00
221_T	255_Y	0.526	1.00
75_V	78_Q	0.526	1.00
142_L	190_L	0.525	0.99
30_F	33_D	0.524	0.99
138_H	327_K	0.524	0.99
43_F	46_S	0.523	0.99
175_A	178_G	0.520	0.99
112_L	115_Y	0.519	0.99
211_I	267_Q	0.518	0.99
326_Q	330_G	0.518	0.99
59_N	270_S	0.517	0.99
321_R	343_Q	0.517	0.99
288_Y	309_G	0.516	0.99
315_M	324_I	0.514	0.99
341_I	346_I	0.514	0.99
315_M	326_Q	0.514	0.99
263_R	275_Q	0.513	0.99
130_I	177_P	0.513	0.99
48_A	352_V	0.513	0.99
219_D	259_G	0.512	0.99
113_S	118_P	0.512	0.99
291_A	314_Y	0.507	0.99
165_W	169_S	0.503	0.99
261_M	338_M	0.503	0.99
267_Q	285_T	0.500	0.99

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
3rjuA	1	0.9039	100	0.215	Contact Map
4ivkA	4	0.9195	100	0.221	Contact Map
4p6bA	5	0.8857	100	0.223	Contact Map
2qmiA	5	0.8857	100	0.231	Contact Map
1yqsA	1	0.8545	100	0.24	Contact Map
3wrzA	1	0.8468	100	0.24	Contact Map
2qz6A	1	0.8156	100	0.241	Contact Map
4netA	1	0.8494	100	0.243	Contact Map
3w8kA	1	0.826	100	0.245	Contact Map
4wz4A	1	0.8468	100	0.246	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.

Page generated in 0.011 seconds.