PEPT - ECOLI - GREMLIN Contacts

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PEPT - Peptidase T

UniProt:	P29745	Sequences: MDKLLERFLNYVSLDTQSKAGVRQVPSTEGQWKLLHLLKEQLEEMGLINVTLSEKGTLMATLPANVPGDIPAIGFISHVDTSPDCSGKNVNPQIVENYRGGDIALGIGDEVLSPVMFPVLHQLLGQTLITTDGKTLLGADDKAGIAEIMTALAVLQQKKIPHGDIRVAFTPDEEVGKGAKHFDVDAFDARWAYTVDGGGVGELEFENFNAASVNIKIVGNNVHPGTAKGVMVNALSLAARIHAEVPADESPEMTEGYEGFYHLASMKGTVERADMHYIIRDFDRKQFEARKRKMMEIAKKVGKGLHPDCYIELVIEDSYYNMREKVVEHPHILDIAQQAMRDCDIEPELKPIRGGTDGAQLSFMGLPCPNLFTGGYNYHGKHEFVTLEGMEKAVQVIVRIAELTAQRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11549
Length:	408 (348)
Sequences:	29015 (20643)
Seq/√Len:	1106.6

ECOLI - PEPT YGEY DAPE ABGA ARGE PEPD ALLC
BACSU - PEPT YQJE YODQ FAPD YXEP YTNL DAPEL YHAA AMHX PEPVL ALLC YQJN
HALSA - Q9HS25
SULSO - Q97Y12 Q97ZB7 Q97V97 LYSK CBPX1 CBPX2 Q97VB6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_T	166_R	3.284	1.00
216_K	272_R	3.022	1.00
39_K	43_E	2.834	1.00
10_N	37_L	2.770	1.00
216_K	274_D	2.715	1.00
128_L	384_F	2.661	1.00
63_P	164_D	2.595	1.00
222_V	231_M	2.589	1.00
237_L	309_C	2.516	1.00
72_A	164_D	2.411	1.00
214_N	274_D	2.393	1.00
217_I	241_I	2.384	1.00
295_M	299_K	2.372	1.00
291_K	295_M	2.369	1.00
218_V	312_E	2.325	1.00
218_V	310_Y	2.310	1.00
218_V	272_R	2.295	1.00
342_D	399_R	2.283	1.00
41_Q	44_E	2.281	1.00
338_Q	403_L	2.275	1.00
154_V	398_V	2.259	1.00
342_D	403_L	2.235	1.00
37_L	41_Q	2.127	1.00
216_K	312_E	2.104	1.00
238_A	261_Y	2.098	1.00
214_N	276_H	2.098	1.00
72_A	166_R	2.092	1.00
262_H	274_D	2.090	1.00
238_A	273_A	2.079	1.00
292_R	296_E	2.051	1.00
14_L	37_L	1.973	1.00
45_M	153_A	1.961	1.00
154_V	158_K	1.951	1.00
260_F	276_H	1.943	1.00
214_N	314_V	1.926	1.00
240_R	243_A	1.917	1.00
116_M	382_H	1.905	1.00
238_A	275_M	1.904	1.00
61_T	164_D	1.881	1.00
42_L	60_A	1.876	1.00
337_Q	341_R	1.873	1.00
117_F	125_G	1.868	1.00
343_C	399_R	1.851	1.00
239_A	242_H	1.850	1.00
32_W	36_H	1.845	1.00
74_G	189_A	1.835	1.00
216_K	314_V	1.829	1.00
41_Q	45_M	1.783	1.00
336_A	400_I	1.741	1.00
40_E	44_E	1.723	1.00
180_K	184_V	1.718	1.00
33_K	36_H	1.679	1.00
7_R	41_Q	1.667	1.00
241_I	298_A	1.662	1.00
299_K	303_K	1.644	1.00
36_H	40_E	1.638	1.00
239_A	243_A	1.617	1.00
232_V	237_L	1.607	1.00
293_K	296_E	1.588	1.00
37_L	40_E	1.588	1.00
220_N	232_V	1.582	1.00
127_T	388_E	1.573	1.00
236_S	246_P	1.558	1.00
399_R	402_E	1.558	1.00
288_E	292_R	1.556	1.00
234_A	273_A	1.547	1.00
4_L	394_V	1.543	1.00
10_N	13_S	1.541	1.00
334_D	337_Q	1.526	1.00
203_L	207_N	1.520	1.00
35_L	79_V	1.516	1.00
66_V	162_H	1.500	1.00
47_L	62_L	1.489	1.00
9_L	13_S	1.486	1.00
74_G	168_A	1.483	1.00
341_R	346_E	1.468	1.00
10_N	33_K	1.468	1.00
153_A	157_Q	1.468	1.00
286_Q	289_A	1.463	1.00
38_L	79_V	1.463	1.00
221_N	271_E	1.458	1.00
6_E	10_N	1.455	1.00
147_E	393_A	1.445	1.00
263_L	273_A	1.445	1.00
289_A	293_K	1.442	1.00
39_K	51_T	1.433	1.00
32_W	56_G	1.431	1.00
244_E	297_I	1.428	1.00
40_E	43_E	1.424	1.00
227_A	230_V	1.422	1.00
203_L	206_E	1.408	1.00
244_E	300_K	1.406	1.00
39_K	58_L	1.402	1.00
291_K	315_I	1.390	1.00
254_T	290_R	1.373	1.00
48_I	63_P	1.360	1.00
10_N	14_L	1.345	1.00
337_Q	349_L	1.341	1.00
217_I	238_A	1.340	1.00
392_K	395_Q	1.329	1.00
41_Q	153_A	1.328	1.00
13_S	124_L	1.320	1.00
74_G	192_A	1.320	1.00
7_R	150_T	1.319	1.00
240_R	304_G	1.314	1.00
213_V	277_Y	1.314	1.00
399_R	403_L	1.299	1.00
335_I	403_L	1.299	1.00
302_G	311_I	1.297	1.00
214_N	316_E	1.288	1.00
75_F	148_I	1.282	1.00
181_H	184_V	1.281	1.00
117_F	122_Q	1.279	1.00
181_H	185_D	1.279	1.00
143_A	390_M	1.275	1.00
143_A	385_V	1.262	1.00
215_I	275_M	1.262	1.00
77_S	141_D	1.254	1.00
16_T	34_L	1.244	1.00
124_L	387_L	1.241	1.00
339_A	403_L	1.238	1.00
65_N	162_H	1.238	1.00
292_R	295_M	1.238	1.00
343_C	395_Q	1.234	1.00
296_E	300_K	1.223	1.00
62_L	156_Q	1.218	1.00
6_E	9_L	1.210	1.00
36_H	39_K	1.201	1.00
391_E	395_Q	1.200	1.00
75_F	401_A	1.198	1.00
71_P	190_R	1.193	1.00
204_E	207_N	1.186	1.00
156_Q	159_K	1.185	1.00
340_M	396_V	1.182	1.00
388_E	392_K	1.177	1.00
4_L	150_T	1.174	1.00
334_D	338_Q	1.173	1.00
217_I	237_L	1.170	1.00
11_Y	34_L	1.170	1.00
7_R	37_L	1.159	1.00
335_I	339_A	1.156	1.00
211_A	287_F	1.153	1.00
232_V	309_C	1.152	1.00
339_A	399_R	1.149	1.00
235_L	261_Y	1.148	1.00
235_L	263_L	1.145	1.00
12_V	131_T	1.138	1.00
18_S	175_V	1.134	1.00
295_M	313_L	1.133	1.00
339_A	343_C	1.133	1.00
362_S	368_C	1.129	1.00
49_N	52_L	1.123	1.00
366_L	369_P	1.122	1.00
296_E	299_K	1.120	1.00
9_L	124_L	1.120	1.00
252_E	283_D	1.117	1.00
338_Q	342_D	1.117	1.00
298_A	311_I	1.113	1.00
158_K	398_V	1.100	1.00
199_G	378_Y	1.098	1.00
12_V	134_K	1.097	1.00
7_R	153_A	1.096	1.00
64_A	164_D	1.091	1.00
289_A	292_R	1.089	1.00
283_D	286_Q	1.084	1.00
248_D	293_K	1.083	1.00
244_E	247_A	1.081	1.00
243_A	247_A	1.081	1.00
14_L	33_K	1.080	1.00
386_T	389_G	1.079	1.00
5_L	9_L	1.073	1.00
10_N	41_Q	1.069	1.00
249_E	252_E	1.061	1.00
87_G	382_H	1.061	1.00
291_K	317_D	1.060	1.00
4_L	146_A	1.052	1.00
128_L	386_T	1.052	1.00
330_P	334_D	1.047	1.00
9_L	387_L	1.044	1.00
85_C	126_Q	1.043	1.00
244_E	301_V	1.041	1.00
143_A	197_G	1.040	1.00
33_K	37_L	1.037	1.00
152_L	167_V	1.036	1.00
72_A	190_R	1.025	1.00
195_V	397_I	1.024	1.00
297_I	301_V	1.020	1.00
38_L	145_I	1.019	1.00
297_I	300_K	1.016	1.00
9_L	122_Q	1.015	1.00
213_V	291_K	1.012	1.00
336_A	369_P	1.011	1.00
338_Q	341_R	1.011	1.00
150_T	153_A	1.010	1.00
127_T	386_T	1.008	1.00
242_H	275_M	1.006	1.00
158_K	402_E	1.005	1.00
177_K	181_H	0.998	1.00
43_E	49_N	0.993	1.00
299_K	302_G	0.991	1.00
35_L	58_L	0.981	1.00
293_K	297_I	0.980	1.00
117_F	123_L	0.980	1.00
236_S	242_H	0.975	1.00
42_L	149_M	0.975	1.00
240_R	244_E	0.970	1.00
47_L	60_A	0.969	1.00
57_T	171_P	0.969	1.00
240_R	247_A	0.968	1.00
11_Y	37_L	0.966	1.00
148_I	167_V	0.966	1.00
151_A	398_V	0.961	1.00
300_K	304_G	0.959	1.00
267_K	276_H	0.959	1.00
339_A	342_D	0.958	1.00
39_K	52_L	0.957	1.00
385_V	390_M	0.954	1.00
180_K	360_Q	0.953	1.00
266_M	269_T	0.953	1.00
238_A	242_H	0.951	1.00
262_H	265_S	0.939	1.00
154_V	395_Q	0.932	1.00
192_A	366_L	0.931	1.00
395_Q	399_R	0.930	1.00
341_R	345_I	0.929	1.00
79_V	169_F	0.929	1.00
35_L	39_K	0.922	1.00
398_V	402_E	0.921	1.00
214_N	267_K	0.916	1.00
50_V	53_S	0.915	1.00
71_P	163_G	0.911	1.00
45_M	156_Q	0.909	1.00
389_G	392_K	0.908	1.00
242_H	258_E	0.903	1.00
258_E	277_Y	0.902	1.00
394_V	398_V	0.902	1.00
79_V	145_I	0.897	1.00
249_E	253_M	0.893	1.00
77_S	145_I	0.893	1.00
218_V	271_E	0.891	1.00
235_L	273_A	0.891	1.00
335_I	338_Q	0.886	1.00
125_G	128_L	0.886	1.00
236_S	239_A	0.886	1.00
19_K	172_D	0.886	1.00
367_P	370_N	0.884	1.00
4_L	390_M	0.882	1.00
166_R	189_A	0.880	1.00
151_A	397_I	0.880	1.00
335_I	400_I	0.877	1.00
215_I	298_A	0.876	1.00
331_H	335_I	0.874	1.00
240_R	246_P	0.866	1.00
64_A	67_P	0.863	1.00
372_F	375_G	0.863	1.00
41_Q	149_M	0.862	1.00
333_L	337_Q	0.859	1.00
331_H	334_D	0.852	1.00
10_N	40_E	0.852	1.00
75_F	151_A	0.852	1.00
245_V	294_M	0.851	1.00
155_L	160_I	0.848	1.00
236_S	247_A	0.845	1.00
13_S	122_Q	0.842	1.00
209_N	281_D	0.841	1.00
300_K	303_K	0.840	1.00
191_W	332_I	0.840	1.00
215_I	241_I	0.838	1.00
34_L	79_V	0.835	1.00
50_V	61_T	0.835	1.00
16_T	142_K	0.834	1.00
8_F	129_I	0.831	1.00
281_D	287_F	0.824	1.00
284_R	288_E	0.815	1.00
152_L	156_Q	0.815	1.00
329_H	332_I	0.814	1.00
261_Y	273_A	0.812	1.00
242_H	261_Y	0.811	1.00
206_E	351_P	0.809	1.00
7_R	10_N	0.808	1.00
315_I	318_S	0.808	1.00
123_L	126_Q	0.807	1.00
47_L	152_L	0.806	1.00
124_L	127_T	0.805	1.00
388_E	391_E	0.805	1.00
211_A	291_K	0.804	1.00
243_A	246_P	0.804	1.00
333_L	369_P	0.803	1.00
194_T	197_G	0.798	1.00
212_S	278_I	0.798	1.00
125_G	130_T	0.797	1.00
301_V	304_G	0.795	1.00
390_M	394_V	0.794	1.00
116_M	125_G	0.793	1.00
285_K	289_A	0.784	1.00
193_Y	400_I	0.784	1.00
43_E	51_T	0.782	1.00
288_E	291_K	0.781	1.00
39_K	49_N	0.781	1.00
18_S	21_G	0.780	1.00
17_Q	20_A	0.779	1.00
147_E	397_I	0.775	1.00
17_Q	83_P	0.774	1.00
117_F	120_L	0.774	1.00
19_K	175_V	0.768	1.00
296_E	303_K	0.767	1.00
340_M	343_C	0.762	1.00
183_D	186_A	0.761	1.00
154_V	394_V	0.758	1.00
336_A	396_V	0.758	1.00
45_M	149_M	0.754	1.00
65_N	161_P	0.753	1.00
245_V	256_G	0.746	1.00
220_N	380_G	0.744	1.00
147_E	394_V	0.744	1.00
36_H	51_T	0.744	1.00
154_V	157_Q	0.743	1.00
151_A	394_V	0.743	1.00
21_G	32_W	0.743	1.00
217_I	275_M	0.741	1.00
279_I	290_R	0.734	1.00
47_L	156_Q	0.730	1.00
287_F	291_K	0.727	1.00
62_L	152_L	0.723	1.00
229_G	249_E	0.722	1.00
158_K	161_P	0.716	1.00
122_Q	129_I	0.715	1.00
258_E	275_M	0.713	1.00
35_L	56_G	0.713	1.00
358_G	368_C	0.712	1.00
371_L	396_V	0.710	1.00
166_R	188_D	0.710	1.00
208_F	211_A	0.708	1.00
295_M	315_I	0.707	1.00
147_E	151_A	0.706	1.00
145_I	169_F	0.706	1.00
7_R	146_A	0.706	1.00
319_Y	322_M	0.706	1.00
183_D	187_F	0.704	1.00
73_I	401_A	0.703	1.00
148_I	195_V	0.701	1.00
147_E	195_V	0.700	1.00
150_T	394_V	0.699	1.00
38_L	169_F	0.695	1.00
118_P	122_Q	0.690	1.00
38_L	149_M	0.690	1.00
116_M	120_L	0.686	1.00
339_A	400_I	0.686	1.00
192_A	197_G	0.683	1.00
62_L	167_V	0.682	1.00
365_G	368_C	0.681	1.00
240_R	301_V	0.680	1.00
81_T	120_L	0.676	1.00
44_E	153_A	0.675	1.00
222_V	270_V	0.670	1.00
49_N	63_P	0.670	1.00
153_A	156_Q	0.666	1.00
374_G	385_V	0.665	1.00
262_H	276_H	0.664	1.00
84_D	120_L	0.664	1.00
256_G	279_I	0.664	1.00
192_A	196_D	0.663	1.00
9_L	129_I	0.662	1.00
396_V	400_I	0.661	1.00
72_A	163_G	0.659	1.00
241_I	275_M	0.657	1.00
395_Q	398_V	0.656	1.00
212_S	267_K	0.654	1.00
67_P	164_D	0.653	1.00
33_K	40_E	0.652	1.00
58_L	169_F	0.651	1.00
213_V	294_M	0.649	1.00
172_D	175_V	0.649	1.00
39_K	50_V	0.648	1.00
287_F	320_Y	0.648	1.00
11_Y	145_I	0.648	1.00
119_V	122_Q	0.647	1.00
7_R	11_Y	0.645	1.00
215_I	313_L	0.644	1.00
81_T	132_D	0.644	1.00
339_A	396_V	0.642	1.00
232_V	308_D	0.640	1.00
217_I	234_A	0.633	1.00
168_A	182_F	0.632	1.00
343_C	396_V	0.631	1.00
5_L	391_E	0.631	1.00
77_S	148_I	0.629	1.00
302_G	310_Y	0.627	1.00
11_Y	146_A	0.626	1.00
194_T	370_N	0.626	1.00
192_A	368_C	0.625	1.00
288_E	317_D	0.625	1.00
66_V	164_D	0.623	1.00
302_G	309_C	0.622	1.00
217_I	311_I	0.622	1.00
38_L	58_L	0.622	1.00
59_M	166_R	0.621	1.00
377_N	382_H	0.621	1.00
260_F	274_D	0.620	1.00
9_L	12_V	0.613	1.00
130_T	384_F	0.612	1.00
5_L	124_L	0.612	1.00
73_I	191_W	0.611	1.00
47_L	50_V	0.611	1.00
7_R	149_M	0.611	1.00
63_P	67_P	0.610	1.00
329_H	334_D	0.610	1.00
387_L	391_E	0.607	1.00
76_I	168_A	0.606	1.00
84_D	131_T	0.606	1.00
213_V	315_I	0.603	1.00
236_S	240_R	0.602	1.00
48_I	61_T	0.599	1.00
356_T	370_N	0.599	1.00
160_I	402_E	0.598	1.00
55_K	181_H	0.598	1.00
179_A	183_D	0.598	1.00
5_L	129_I	0.595	1.00
68_G	71_P	0.594	1.00
156_Q	160_I	0.594	1.00
87_G	381_K	0.594	1.00
237_L	301_V	0.592	1.00
129_I	387_L	0.591	1.00
327_V	330_P	0.590	1.00
264_A	272_R	0.588	1.00
14_L	34_L	0.586	1.00
168_A	192_A	0.586	1.00
337_Q	348_E	0.585	1.00
236_S	243_A	0.585	1.00
14_L	125_G	0.585	1.00
15_D	20_A	0.584	1.00
192_A	361_L	0.584	1.00
17_Q	128_L	0.583	1.00
194_T	358_G	0.581	1.00
217_I	309_C	0.581	1.00
298_A	313_L	0.581	1.00
241_I	297_I	0.581	1.00
124_L	129_I	0.580	1.00
49_N	61_T	0.580	1.00
64_A	159_K	0.579	1.00
207_N	356_T	0.579	1.00
8_F	146_A	0.576	1.00
141_D	144_G	0.576	1.00
205_F	349_L	0.576	1.00
277_Y	294_M	0.574	1.00
330_P	367_P	0.574	1.00
262_H	272_R	0.574	1.00
47_L	167_V	0.572	1.00
7_R	45_M	0.571	1.00
366_L	370_N	0.568	1.00
373_T	393_A	0.568	1.00
122_Q	125_G	0.568	1.00
17_Q	120_L	0.567	1.00
237_L	240_R	0.566	1.00
281_D	290_R	0.565	1.00
76_I	170_T	0.562	1.00
174_E	379_H	0.562	1.00
377_N	380_G	0.560	1.00
8_F	387_L	0.559	1.00
209_N	321_N	0.555	1.00
260_F	265_S	0.553	1.00
17_Q	84_D	0.552	1.00
371_L	375_G	0.550	1.00
84_D	87_G	0.548	1.00
321_N	327_V	0.547	1.00
208_F	255_E	0.546	1.00
241_I	301_V	0.545	1.00
332_I	335_I	0.545	1.00
66_V	161_P	0.544	1.00
42_L	47_L	0.539	1.00
43_E	48_I	0.539	1.00
116_M	122_Q	0.538	1.00
123_L	130_T	0.537	1.00
42_L	152_L	0.537	1.00
337_Q	347_P	0.536	1.00
391_E	394_V	0.535	1.00
150_T	154_V	0.535	1.00
239_A	246_P	0.535	1.00
59_M	168_A	0.535	1.00
292_R	299_K	0.534	1.00
371_L	374_G	0.533	1.00
222_V	227_A	0.532	1.00
369_P	372_F	0.532	1.00
370_N	374_G	0.530	1.00
234_A	270_V	0.530	1.00
146_A	390_M	0.530	1.00
191_W	367_P	0.529	1.00
172_D	177_K	0.528	1.00
5_L	387_L	0.527	1.00
337_Q	346_E	0.526	1.00
254_T	281_D	0.526	1.00
204_E	350_K	0.526	1.00
233_N	257_Y	0.525	1.00
213_V	313_L	0.523	1.00
245_V	258_E	0.523	1.00
11_Y	38_L	0.523	1.00
360_Q	363_F	0.522	1.00
232_V	310_Y	0.521	1.00
217_I	298_A	0.517	1.00
131_T	134_K	0.517	1.00
298_A	302_G	0.516	1.00
21_G	172_D	0.515	1.00
177_K	319_Y	0.515	1.00
375_G	389_G	0.514	1.00
71_P	162_H	0.512	1.00
204_E	208_F	0.511	1.00
4_L	8_F	0.510	1.00
215_I	277_Y	0.510	1.00
285_K	288_E	0.508	1.00
241_I	245_V	0.507	1.00
168_A	361_L	0.507	1.00
192_A	195_V	0.507	1.00
35_L	52_L	0.505	1.00
49_N	60_A	0.503	1.00
279_I	294_M	0.503	1.00
284_R	363_F	0.503	1.00
53_S	56_G	0.503	1.00
250_S	253_M	0.502	1.00
57_T	182_F	0.502	1.00
129_I	134_K	0.501	1.00
312_E	315_I	0.501	1.00
231_M	234_A	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
3pfoA	2	0.8897	100	0.306	Contact Map
3rzaA	2	0.8725	100	0.313	Contact Map
3gb0A	2	0.8775	100	0.315	Contact Map
3ifeA	2	0.9951	100	0.326	Contact Map
1fnoA	2	0.9191	100	0.329	Contact Map
1cg2A	4	0.8799	100	0.337	Contact Map
3iszA	2	0.8529	100	0.338	Contact Map
4pqaA	2	0.8627	100	0.339	Contact Map
4mmoA	2	0.8799	100	0.346	Contact Map
2qyvA	2	0.8676	100	0.354	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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