DEGS - ECOLI - GREMLIN Contacts

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DEGS - Serine endoprotease DegS

UniProt:	P0AEE3	Sequences: MFVKLLRSVAIGLIVGAILLVAMPSLRSLNPLSTPQFDSTDETPASYNLAVRRAAPAVVNVYNRGLNTNSHNQLEIRTLGSGVIMDQRGYIITNKHVINDADQIIVALQDGRVFEALLVGSDSLTDLAVLKINATGGLPTIPINARRVPHIGDVVLAIGNPYNLGQTITQGIISATGRIGLNPTGRQNFLQTDASINHGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPFQLATKIMDKLIRDGRVIRGYIGIGGREIAPLHAQGGGIDQLQGIVVNEVSPDGPAANAGIQVNDLIISVDNKPAISALETMDQVAEIRPGSVIPVVVMRDDKQLTLQVTIQEYPATN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11652
Length:	355 (310)
Sequences:	8981 (6107)
Seq/√Len:	346.9

ECOLI - DEGS DEGQ DEGP
BACSU - HTRB YYXA HTRA
HALSA - Q9HSH6
SULSO - Q97VL1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
207_N	211_E	5.807	1.00
52_R	150_H	4.640	1.00
306_S	334_V	4.215	1.00
335_V	344_L	3.888	1.00
145_A	239_Q	3.760	1.00
308_D	325_I	3.416	1.00
95_K	121_S	3.208	1.00
142_P	211_E	3.120	1.00
141_I	212_L	2.935	1.00
330_V	345_Q	2.865	1.00
145_A	148_V	2.806	1.00
332_P	343_T	2.720	1.00
334_V	341_Q	2.717	1.00
116_A	130_L	2.648	1.00
104_I	118_L	2.630	1.00
57_A	140_T	2.589	1.00
147_R	239_Q	2.570	1.00
117_L	133_N	2.369	1.00
83_V	215_I	2.328	1.00
129_V	249_I	2.276	1.00
332_P	345_Q	2.239	1.00
196_I	233_G	2.168	1.00
335_V	342_L	2.126	1.00
114_F	132_I	2.114	1.00
83_V	204_A	2.078	1.00
306_S	309_N	2.055	1.00
83_V	212_L	2.035	1.00
48_N	153_D	2.014	1.00
305_I	336_M	1.990	1.00
173_I	190_L	1.987	1.00
105_I	113_V	1.987	1.00
92_I	241_A	1.987	1.00
143_I	238_F	1.979	1.00
127_L	215_I	1.968	1.00
51_V	168_I	1.961	1.00
83_V	141_I	1.947	1.00
103_Q	115_E	1.944	1.00
306_S	311_P	1.903	1.00
143_I	242_T	1.899	1.00
330_V	347_T	1.867	1.00
259_I	346_V	1.862	1.00
313_I	317_E	1.841	1.00
290_D	294_A	1.839	1.00
334_V	343_T	1.780	1.00
64_R	103_Q	1.762	1.00
298_I	335_V	1.730	1.00
141_I	206_V	1.727	1.00
298_I	333_V	1.722	1.00
154_V	170_Q	1.685	1.00
302_D	337_R	1.684	1.00
92_I	245_M	1.670	1.00
326_R	329_S	1.665	1.00
247_K	251_D	1.664	1.00
251_D	255_I	1.651	1.00
204_A	212_L	1.643	1.00
263_G	315_A	1.642	1.00
262_G	286_E	1.609	1.00
48_N	150_H	1.585	1.00
258_Y	292_P	1.577	1.00
305_I	341_Q	1.574	1.00
84_I	138_L	1.573	1.00
54_A	206_V	1.568	1.00
246_D	250_R	1.553	1.00
325_I	348_I	1.537	1.00
54_A	141_I	1.532	1.00
117_L	131_K	1.523	1.00
255_I	350_E	1.519	1.00
149_P	213_M	1.498	1.00
105_I	115_E	1.492	1.00
265_E	315_A	1.488	1.00
253_R	350_E	1.482	1.00
108_L	114_F	1.480	1.00
84_I	108_L	1.476	1.00
295_N	349_Q	1.456	1.00
305_I	334_V	1.452	1.00
314_S	317_E	1.443	1.00
47_Y	154_V	1.437	1.00
134_A	138_L	1.436	1.00
325_I	329_S	1.429	1.00
90_Y	131_K	1.410	1.00
337_R	342_L	1.410	1.00
90_Y	119_V	1.408	1.00
90_Y	249_I	1.371	1.00
215_I	241_A	1.368	1.00
284_V	298_I	1.361	1.00
82_G	91_I	1.361	1.00
146_R	239_Q	1.357	1.00
242_T	246_D	1.347	1.00
310_K	321_Q	1.342	1.00
46_S	153_D	1.314	1.00
307_V	325_I	1.305	1.00
86_D	90_Y	1.303	1.00
50_A	206_V	1.302	1.00
257_G	327_P	1.302	1.00
63_N	104_I	1.294	1.00
62_Y	107_A	1.292	1.00
120_G	248_L	1.275	1.00
96_H	126_D	1.273	1.00
57_A	141_I	1.268	1.00
154_V	208_S	1.266	1.00
280_Q	311_P	1.255	1.00
87_Q	137_G	1.248	1.00
162_Y	220_F	1.247	1.00
176_T	190_L	1.246	1.00
177_G	188_N	1.241	1.00
96_H	201_S	1.236	1.00
298_I	344_L	1.235	1.00
222_K	230_E	1.231	1.00
122_D	125_T	1.231	1.00
85_M	245_M	1.231	1.00
91_I	132_I	1.229	1.00
144_N	238_F	1.228	1.00
47_Y	170_Q	1.224	1.00
81_S	204_A	1.208	1.00
144_N	149_P	1.207	1.00
289_P	294_A	1.205	1.00
292_P	349_Q	1.204	1.00
157_A	205_L	1.204	1.00
219_S	229_P	1.202	1.00
308_D	332_P	1.192	1.00
59_V	91_I	1.186	1.00
114_F	134_A	1.184	1.00
336_M	341_Q	1.184	1.00
325_I	331_I	1.179	1.00
61_V	130_L	1.162	1.00
53_R	142_P	1.157	1.00
149_P	190_L	1.151	1.00
149_P	173_I	1.149	1.00
192_T	205_L	1.143	1.00
151_I	176_T	1.138	1.00
288_S	291_G	1.112	1.00
49_L	150_H	1.108	1.00
331_I	348_I	1.106	1.00
47_Y	156_L	1.092	1.00
219_S	230_E	1.085	1.00
95_K	99_N	1.084	1.00
162_Y	229_P	1.084	1.00
258_Y	288_S	1.081	1.00
308_D	321_Q	1.080	1.00
155_V	173_I	1.078	1.00
284_V	304_I	1.075	1.00
157_A	216_N	1.053	1.00
156_L	208_S	1.051	1.00
307_V	318_T	1.051	1.00
50_A	156_L	1.045	1.00
59_V	82_G	1.044	1.00
280_Q	313_I	1.041	1.00
205_L	216_N	1.040	1.00
51_V	156_L	1.037	1.00
118_L	121_S	1.029	1.00
307_V	333_V	1.026	1.00
286_E	300_V	1.020	1.00
65_G	76_I	1.019	1.00
267_A	270_H	1.019	1.00
107_A	113_V	1.018	1.00
46_S	49_L	1.016	1.00
283_V	301_N	1.012	1.00
61_V	106_V	0.997	1.00
287_V	291_G	0.993	1.00
80_G	97_V	0.988	1.00
90_Y	129_V	0.988	1.00
245_M	249_I	0.987	1.00
124_L	351_Y	0.984	1.00
101_A	104_I	0.981	1.00
108_L	132_I	0.978	1.00
246_D	249_I	0.972	1.00
96_H	199_G	0.966	1.00
160_N	165_G	0.966	1.00
57_A	139_P	0.941	1.00
125_T	244_I	0.939	1.00
143_I	212_L	0.934	1.00
56_P	139_P	0.930	1.00
125_T	256_R	0.923	1.00
86_D	249_I	0.923	1.00
95_K	123_S	0.922	1.00
134_A	137_G	0.920	1.00
333_V	344_L	0.920	1.00
260_G	292_P	0.920	1.00
108_L	112_R	0.910	1.00
264_R	285_N	0.910	1.00
54_A	158_I	0.910	1.00
50_A	54_A	0.909	1.00
196_I	216_N	0.908	1.00
168_I	172_I	0.905	1.00
149_P	176_T	0.904	1.00
47_Y	51_V	0.902	1.00
51_V	55_A	0.902	1.00
257_G	348_I	0.900	1.00
312_A	321_Q	0.900	1.00
299_Q	337_R	0.894	1.00
162_Y	230_E	0.889	1.00
307_V	322_V	0.889	1.00
119_V	131_K	0.884	1.00
307_V	331_I	0.882	1.00
126_D	201_S	0.882	1.00
122_D	256_R	0.880	1.00
336_M	339_D	0.879	1.00
243_K	247_K	0.877	1.00
88_R	131_K	0.869	1.00
106_V	132_I	0.866	1.00
241_A	245_M	0.864	1.00
127_L	245_M	0.863	1.00
150_H	153_D	0.858	1.00
155_V	213_M	0.857	1.00
120_G	129_V	0.855	1.00
91_I	130_L	0.852	1.00
87_Q	140_T	0.844	1.00
287_V	297_G	0.843	1.00
309_N	332_P	0.843	1.00
281_G	303_L	0.836	1.00
266_I	276_I	0.832	1.00
263_G	282_I	0.830	1.00
146_R	149_P	0.829	1.00
287_V	300_V	0.827	1.00
106_V	116_A	0.826	1.00
244_I	248_L	0.824	1.00
64_R	75_E	0.824	1.00
155_V	208_S	0.823	1.00
221_D	229_P	0.817	1.00
94_N	236_I	0.816	1.00
89_G	131_K	0.815	1.00
265_E	314_S	0.815	1.00
194_A	233_G	0.810	1.00
55_A	166_Q	0.809	1.00
261_I	282_I	0.802	1.00
99_N	123_S	0.800	1.00
178_R	191_Q	0.793	1.00
191_Q	234_F	0.790	1.00
282_I	312_A	0.786	1.00
60_N	78_T	0.784	1.00
238_F	242_T	0.775	1.00
266_I	279_L	0.766	1.00
327_P	349_Q	0.759	1.00
63_N	79_L	0.758	1.00
258_Y	351_Y	0.756	1.00
64_R	105_I	0.755	1.00
129_V	245_M	0.753	1.00
50_A	53_R	0.753	1.00
58_V	204_A	0.751	1.00
94_N	126_D	0.747	1.00
337_R	340_K	0.742	1.00
129_V	248_L	0.740	1.00
85_M	129_V	0.740	1.00
205_L	235_A	0.737	1.00
64_R	77_R	0.736	0.99
238_F	241_A	0.731	0.99
53_R	139_P	0.728	0.99
262_G	288_S	0.726	0.99
299_Q	338_D	0.726	0.99
180_G	189_F	0.724	0.99
85_M	249_I	0.724	0.99
263_G	318_T	0.720	0.99
94_N	216_N	0.720	0.99
68_T	73_Q	0.716	0.99
66_L	102_D	0.711	0.99
126_D	199_G	0.708	0.99
288_S	294_A	0.708	0.99
63_N	78_T	0.707	0.99
63_N	102_D	0.704	0.99
86_D	140_T	0.704	0.99
49_L	53_R	0.703	0.99
87_Q	139_P	0.703	0.99
259_I	348_I	0.702	0.99
85_M	92_I	0.700	0.99
97_V	201_S	0.700	0.99
333_V	346_V	0.699	0.99
259_I	333_V	0.697	0.99
84_I	140_T	0.694	0.99
66_L	73_Q	0.691	0.99
262_G	285_N	0.689	0.99
322_V	325_I	0.689	0.99
55_A	109_Q	0.688	0.99
330_V	348_I	0.688	0.99
247_K	252_G	0.683	0.99
223_S	229_P	0.682	0.99
84_I	132_I	0.681	0.99
120_G	244_I	0.680	0.99
43_T	46_S	0.680	0.99
340_K	345_Q	0.678	0.99
183_P	186_R	0.678	0.99
264_R	270_H	0.676	0.99
60_N	160_N	0.676	0.99
264_R	283_V	0.675	0.99
197_N	200_N	0.673	0.99
160_N	163_N	0.667	0.99
83_V	92_I	0.666	0.99
270_H	273_G	0.665	0.99
46_S	154_V	0.665	0.99
98_I	121_S	0.665	0.99
50_A	141_I	0.661	0.99
94_N	97_V	0.660	0.99
287_V	294_A	0.659	0.99
104_I	130_L	0.657	0.99
284_V	344_L	0.656	0.99
293_A	296_A	0.656	0.99
268_P	272_Q	0.655	0.99
212_L	238_F	0.652	0.99
257_G	329_S	0.651	0.99
132_I	135_T	0.649	0.99
198_H	222_K	0.648	0.99
153_D	207_N	0.647	0.99
261_I	298_I	0.647	0.99
304_I	312_A	0.645	0.99
174_S	191_Q	0.645	0.99
296_A	346_V	0.643	0.99
247_K	254_V	0.643	0.99
156_L	168_I	0.643	0.99
43_T	154_V	0.643	0.99
186_R	323_A	0.642	0.99
178_R	234_F	0.640	0.99
337_R	344_L	0.636	0.99
162_Y	219_S	0.635	0.99
204_A	216_N	0.634	0.99
63_N	101_A	0.630	0.98
216_N	235_A	0.628	0.98
65_G	78_T	0.627	0.98
335_V	343_T	0.621	0.98
295_N	347_T	0.620	0.98
308_D	331_I	0.620	0.98
331_I	346_V	0.613	0.98
265_E	316_L	0.612	0.98
94_N	200_N	0.610	0.98
115_E	133_N	0.610	0.98
294_A	297_G	0.608	0.98
149_P	155_V	0.608	0.98
188_N	240_L	0.608	0.98
170_Q	193_D	0.603	0.98
184_T	187_Q	0.603	0.98
306_S	341_Q	0.603	0.98
321_Q	325_I	0.602	0.98
62_Y	105_I	0.602	0.98
91_I	138_L	0.602	0.98
94_N	201_S	0.601	0.98
44_P	48_N	0.599	0.98
60_N	79_L	0.598	0.98
247_K	250_R	0.598	0.98
258_Y	263_G	0.598	0.98
125_T	254_V	0.597	0.98
137_G	140_T	0.597	0.98
96_H	191_Q	0.597	0.98
299_Q	302_D	0.597	0.98
291_G	294_A	0.596	0.98
98_I	104_I	0.594	0.98
267_A	271_A	0.593	0.98
69_N	73_Q	0.593	0.98
156_L	170_Q	0.592	0.98
62_Y	79_L	0.591	0.98
248_L	254_V	0.591	0.98
40_T	43_T	0.591	0.98
310_K	324_E	0.589	0.98
308_D	329_S	0.588	0.98
239_Q	242_T	0.588	0.98
191_Q	197_N	0.586	0.98
195_S	229_P	0.586	0.98
319_M	322_V	0.585	0.97
84_I	91_I	0.584	0.97
317_E	321_Q	0.584	0.97
190_L	205_L	0.584	0.97
329_S	348_I	0.582	0.97
91_I	106_V	0.582	0.97
155_V	205_L	0.581	0.97
251_D	254_V	0.580	0.97
67_N	76_I	0.578	0.97
312_A	318_T	0.574	0.97
290_D	295_N	0.572	0.97
44_P	153_D	0.571	0.97
182_N	218_L	0.570	0.97
321_Q	324_E	0.569	0.97
65_G	102_D	0.568	0.97
146_R	238_F	0.567	0.97
220_F	229_P	0.567	0.97
255_I	348_I	0.566	0.97
271_A	276_I	0.566	0.97
189_F	217_T	0.566	0.97
207_N	213_M	0.565	0.97
179_I	189_F	0.565	0.97
169_T	200_N	0.565	0.97
127_L	238_F	0.565	0.97
162_Y	232_I	0.563	0.97
81_S	161_P	0.563	0.97
45_A	49_L	0.562	0.97
219_S	232_I	0.562	0.97
265_E	282_I	0.562	0.97
62_Y	113_V	0.562	0.97
129_V	177_G	0.561	0.97
319_M	323_A	0.558	0.97
86_D	89_G	0.557	0.97
60_N	165_G	0.557	0.97
155_V	170_Q	0.557	0.97
214_G	235_A	0.554	0.97
93_T	128_A	0.554	0.97
200_N	203_G	0.554	0.97
182_N	189_F	0.553	0.96
312_A	333_V	0.552	0.96
47_Y	168_I	0.550	0.96
45_A	48_N	0.548	0.96
222_K	228_T	0.545	0.96
92_I	127_L	0.544	0.96
270_H	274_G	0.544	0.96
145_A	242_T	0.544	0.96
317_E	320_D	0.542	0.96
307_V	312_A	0.542	0.96
53_R	56_P	0.540	0.96
88_R	140_T	0.539	0.96
67_N	75_E	0.539	0.96
99_N	121_S	0.539	0.96
174_S	200_N	0.539	0.96
187_Q	217_T	0.537	0.96
248_L	257_G	0.537	0.96
56_P	109_Q	0.536	0.96
292_P	296_A	0.536	0.96
125_T	240_L	0.536	0.96
114_F	138_L	0.535	0.96
259_I	318_T	0.534	0.96
40_T	44_P	0.534	0.96
66_L	75_E	0.532	0.96
158_I	206_V	0.532	0.96
309_N	334_V	0.530	0.96
86_D	131_K	0.530	0.96
263_G	319_M	0.529	0.96
286_E	289_P	0.529	0.96
60_N	166_Q	0.529	0.96
46_S	208_S	0.528	0.95
128_A	203_G	0.527	0.95
161_P	200_N	0.527	0.95
107_A	111_G	0.526	0.95
112_R	134_A	0.525	0.95
299_Q	342_L	0.525	0.95
169_T	174_S	0.523	0.95
112_R	137_G	0.523	0.95
244_I	254_V	0.523	0.95
221_D	228_T	0.522	0.95
94_N	199_G	0.519	0.95
293_A	297_G	0.518	0.95
164_L	232_I	0.518	0.95
61_V	82_G	0.517	0.95
240_L	244_I	0.517	0.95
45_A	208_S	0.516	0.95
318_T	333_V	0.516	0.95
92_I	238_F	0.514	0.95
160_N	218_L	0.514	0.95
144_N	213_M	0.514	0.95
97_V	199_G	0.513	0.95
51_V	158_I	0.513	0.95
144_N	148_V	0.513	0.95
197_N	231_G	0.512	0.95
294_A	299_Q	0.511	0.95
108_L	138_L	0.511	0.95
183_P	187_Q	0.510	0.95
244_I	252_G	0.510	0.95
89_G	138_L	0.509	0.94
143_I	241_A	0.508	0.94
198_H	219_S	0.508	0.94
342_L	345_Q	0.508	0.94
174_S	197_N	0.507	0.94
167_T	178_R	0.507	0.94
282_I	315_A	0.505	0.94
127_L	241_A	0.504	0.94
98_I	128_A	0.504	0.94
69_N	74_L	0.503	0.94
80_G	201_S	0.502	0.94
61_V	116_A	0.502	0.94
328_G	347_T	0.502	0.94
161_P	164_L	0.501	0.94
155_V	192_T	0.500	0.94

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
1ky9A	5	0.8563	100	0.295	Contact Map
3stjA	6	0.8423	100	0.303	Contact Map
3pv2A	6	0.8169	100	0.312	Contact Map
4a8cA	5	0.8563	100	0.316	Contact Map
1te0A	6	0.8958	100	0.346	Contact Map
1lcyA	3	0.8169	100	0.354	Contact Map
4ri0A	3	0.8507	100	0.36	Contact Map
3qo6A	5	0.8789	100	0.364	Contact Map
4ic6A	4	0.8732	100	0.367	Contact Map
3numA	3	0.5352	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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