CLPX - ECOLI - GREMLIN Contacts

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CLPX - ATP-dependent Clp protease ATP-binding subunit ClpX

UniProt:	P0A6H1	Sequences: MTDKRKDGSGKLLYCSFCGKSQHEVRKLIAGPSVYICDECVDLCNDIIREEIKEVAPHRERSALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSKPLLIYGKPEAQQASGE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10159
Length:	424 (341)
Sequences:	8824 (4534)
Seq/√Len:	245.5

ECOLI - CLPX CLPB CLPA HSLU
BACSU - CLPX CLPC CLPE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
319_E	360_K	5.141	1.00
327_K	355_L	4.712	1.00
323_I	356_D	4.078	1.00
69_E	72_N	3.635	1.00
318_S	321_A	3.593	1.00
319_E	356_D	3.453	1.00
393_V	396_V	3.338	1.00
351_R	399_D	3.317	1.00
73_H	76_D	3.262	1.00
219_V	229_K	3.106	1.00
75_D	82_E	3.067	1.00
349_E	395_K	2.818	1.00
335_K	338_Q	2.570	1.00
90_V	382_D	2.519	1.00
90_V	386_D	2.505	1.00
396_V	399_D	2.468	1.00
70_I	135_L	2.465	1.00
324_Q	328_E	2.390	1.00
114_N	215_I	2.364	1.00
287_L	290_V	2.315	1.00
357_A	361_K	2.313	1.00
347_D	395_K	2.223	1.00
73_H	135_L	2.217	1.00
15_C	19_G	2.173	1.00
40_C	43_L	2.153	1.00
239_D	308_L	2.126	1.00
71_R	86_K	2.118	1.00
162_I	238_V	2.106	1.00
15_C	29_I	2.074	1.00
71_R	75_D	2.050	1.00
361_K	379_A	1.974	1.00
284_G	287_L	1.973	1.00
287_L	291_E	1.932	1.00
139_P	176_A	1.888	1.00
20_K	24_E	1.855	1.00
323_I	352_D	1.829	1.00
391_E	394_E	1.816	1.00
334_T	350_F	1.808	1.00
243_I	298_F	1.807	1.00
323_I	355_L	1.797	1.00
77_Y	134_R	1.783	1.00
256_K	259_S	1.752	1.00
129_A	238_V	1.752	1.00
391_E	396_V	1.748	1.00
351_R	397_V	1.739	1.00
342_N	347_D	1.729	1.00
375_I	379_A	1.722	1.00
283_E	287_L	1.702	1.00
116_L	308_L	1.690	1.00
214_L	237_Q	1.683	1.00
357_A	360_K	1.641	1.00
19_G	23_H	1.632	1.00
339_A	342_N	1.629	1.00
22_Q	29_I	1.624	1.00
285_E	288_A	1.616	1.00
71_R	93_Y	1.614	1.00
75_D	85_K	1.602	1.00
283_E	286_L	1.597	1.00
16_S	20_K	1.592	1.00
321_A	324_Q	1.572	1.00
61_R	69_E	1.568	1.00
294_D	297_K	1.565	1.00
141_T	179_G	1.554	1.00
19_G	22_Q	1.539	1.00
16_S	22_Q	1.537	1.00
68_H	386_D	1.518	1.00
15_C	20_K	1.510	1.00
358_I	375_I	1.509	1.00
83_Q	315_N	1.503	1.00
361_K	375_I	1.492	1.00
352_D	356_D	1.490	1.00
174_Q	177_Q	1.485	1.00
69_E	73_H	1.483	1.00
337_Y	376_V	1.480	1.00
333_L	373_R	1.475	1.00
111_G	130_E	1.464	1.00
79_I	328_E	1.464	1.00
353_E	400_E	1.461	1.00
357_A	379_A	1.446	1.00
349_E	397_V	1.443	1.00
17_F	21_S	1.442	1.00
85_K	128_L	1.439	1.00
315_N	321_A	1.439	1.00
68_H	389_S	1.437	1.00
77_Y	127_L	1.420	1.00
211_L	214_L	1.413	1.00
333_L	336_Q	1.411	1.00
21_S	24_E	1.408	1.00
77_Y	131_T	1.405	1.00
288_A	292_P	1.391	1.00
95_H	100_R	1.389	1.00
16_S	19_G	1.389	1.00
353_E	399_D	1.373	1.00
327_K	352_D	1.370	1.00
326_L	355_L	1.355	1.00
338_Q	347_D	1.351	1.00
350_F	355_L	1.344	1.00
295_L	305_I	1.334	1.00
68_H	390_M	1.333	1.00
24_E	28_L	1.323	1.00
15_C	22_Q	1.323	1.00
322_L	359_A	1.311	1.00
286_L	290_V	1.308	1.00
286_L	291_E	1.300	1.00
324_Q	327_K	1.284	1.00
71_R	89_A	1.266	1.00
326_L	359_A	1.261	1.00
22_Q	26_R	1.259	1.00
362_A	372_L	1.255	1.00
23_H	27_K	1.254	1.00
387_L	390_M	1.242	1.00
383_T	387_L	1.240	1.00
379_A	383_T	1.236	1.00
386_D	390_M	1.234	1.00
102_G	340_L	1.231	1.00
116_L	295_L	1.224	1.00
338_Q	342_N	1.222	1.00
21_S	29_I	1.222	1.00
393_V	399_D	1.220	1.00
350_F	354_A	1.215	1.00
150_E	157_D	1.213	1.00
116_L	186_I	1.212	1.00
256_K	260_H	1.210	1.00
288_A	291_E	1.207	1.00
17_F	20_K	1.206	1.00
88_L	128_L	1.205	1.00
243_I	295_L	1.195	1.00
323_I	359_A	1.191	1.00
118_I	241_S	1.188	1.00
162_I	181_V	1.178	1.00
149_T	209_Q	1.174	1.00
338_Q	348_L	1.167	1.00
362_A	375_I	1.165	1.00
65_P	69_E	1.163	1.00
166_L	238_V	1.150	1.00
284_G	288_A	1.148	1.00
149_T	192_K	1.146	1.00
131_T	134_R	1.145	1.00
351_R	354_A	1.139	1.00
77_Y	137_D	1.139	1.00
214_L	220_A	1.136	1.00
72_N	75_D	1.136	1.00
23_H	26_R	1.135	1.00
334_T	376_V	1.131	1.00
70_I	89_A	1.125	1.00
261_R	264_T	1.118	1.00
166_L	173_V	1.116	1.00
25_V	29_I	1.116	1.00
154_V	210_A	1.113	1.00
74_L	78_V	1.103	1.00
47_I	51_E	1.099	1.00
344_E	392_D	1.094	1.00
93_Y	386_D	1.094	1.00
393_V	397_V	1.093	1.00
86_K	90_V	1.090	1.00
22_Q	25_V	1.081	1.00
82_E	321_A	1.076	1.00
87_V	312_A	1.074	1.00
21_S	28_L	1.065	1.00
16_S	29_I	1.064	1.00
100_R	112_K	1.064	1.00
148_L	168_K	1.051	1.00
232_Q	235_F	1.050	1.00
62_S	65_P	1.037	1.00
140_F	180_I	1.027	1.00
353_E	356_D	1.026	1.00
25_V	28_L	1.025	1.00
72_N	76_D	1.025	1.00
21_S	25_V	1.024	1.00
30_A	33_S	1.022	1.00
136_L	236_L	1.018	1.00
117_L	238_V	1.017	1.00
173_V	235_F	1.016	1.00
357_A	400_E	1.007	1.00
335_K	339_A	1.007	1.00
284_G	290_V	1.007	1.00
15_C	21_S	1.005	1.00
258_I	262_V	1.001	1.00
323_I	327_K	0.995	1.00
94_N	382_D	0.993	1.00
356_D	360_K	0.988	1.00
293_E	296_I	0.985	1.00
216_E	373_R	0.982	1.00
20_K	23_H	0.982	1.00
336_Q	339_A	0.973	1.00
334_T	355_L	0.972	1.00
319_E	359_A	0.968	1.00
334_T	338_Q	0.967	1.00
177_Q	239_D	0.967	1.00
74_L	131_T	0.958	1.00
320_E	323_I	0.953	1.00
15_C	18_C	0.953	1.00
173_V	232_Q	0.948	1.00
286_L	289_Q	0.948	1.00
92_V	136_L	0.943	1.00
83_Q	288_A	0.936	1.00
93_Y	382_D	0.935	1.00
300_L	304_F	0.931	1.00
326_L	376_V	0.918	1.00
381_L	385_Y	0.917	1.00
350_F	380_L	0.915	1.00
285_E	289_Q	0.914	1.00
392_D	396_V	0.912	1.00
357_A	375_I	0.912	1.00
391_E	397_V	0.910	1.00
110_L	373_R	0.907	1.00
26_R	29_I	0.907	1.00
82_E	86_K	0.904	1.00
19_G	29_I	0.899	1.00
46_D	57_P	0.895	1.00
20_K	29_I	0.890	1.00
38_D	43_L	0.881	1.00
232_Q	237_Q	0.878	1.00
149_T	210_A	0.877	0.99
43_L	46_D	0.874	0.99
99_L	337_Y	0.873	0.99
320_E	356_D	0.870	0.99
293_E	297_K	0.866	0.99
243_I	294_D	0.865	0.99
160_N	163_Q	0.860	0.99
36_I	40_C	0.859	0.99
117_L	314_L	0.859	0.99
391_E	399_D	0.856	0.99
18_C	29_I	0.855	0.99
151_A	154_V	0.853	0.99
295_L	311_V	0.852	0.99
18_C	22_Q	0.851	0.99
382_D	386_D	0.847	0.99
16_S	21_S	0.846	0.99
319_E	363_M	0.846	0.99
364_A	371_G	0.843	0.99
327_K	338_Q	0.843	0.99
24_E	27_K	0.843	0.99
333_L	376_V	0.834	0.99
361_K	364_A	0.833	0.99
127_L	131_T	0.831	0.99
322_L	363_M	0.829	0.99
29_I	32_P	0.828	0.99
102_G	343_L	0.827	0.99
143_A	181_V	0.826	0.99
310_V	377_E	0.823	0.99
333_L	372_L	0.822	0.99
79_I	324_Q	0.821	0.99
20_K	25_V	0.820	0.99
346_V	388_P	0.820	0.99
78_V	131_T	0.820	0.99
394_E	397_V	0.813	0.99
71_R	385_Y	0.812	0.99
83_Q	86_K	0.811	0.99
93_Y	389_S	0.810	0.99
212_L	303_E	0.809	0.99
289_Q	293_E	0.808	0.99
86_K	89_A	0.808	0.99
327_K	335_K	0.807	0.99
337_Y	381_L	0.806	0.99
130_E	217_G	0.806	0.99
45_N	49_R	0.805	0.99
143_A	153_Y	0.804	0.99
349_E	352_D	0.803	0.99
270_F	274_V	0.801	0.99
340_L	381_L	0.800	0.99
352_D	355_L	0.799	0.99
172_D	176_A	0.798	0.99
36_I	43_L	0.795	0.99
284_G	291_E	0.793	0.99
358_I	376_V	0.792	0.99
163_Q	225_Q	0.790	0.99
260_H	263_E	0.785	0.99
61_R	65_P	0.778	0.99
141_T	173_V	0.770	0.99
350_F	376_V	0.769	0.99
41_V	58_H	0.767	0.99
29_I	33_S	0.763	0.99
75_D	86_K	0.762	0.99
392_D	395_K	0.760	0.99
89_A	93_Y	0.759	0.99
319_E	323_I	0.759	0.99
171_Y	175_K	0.757	0.99
296_I	367_T	0.755	0.98
221_A	235_F	0.750	0.98
75_D	321_A	0.749	0.98
358_I	379_A	0.747	0.98
351_R	400_E	0.746	0.98
396_V	400_E	0.745	0.98
304_F	308_L	0.744	0.98
100_R	381_L	0.744	0.98
16_S	23_H	0.743	0.98
141_T	181_V	0.743	0.98
15_C	25_V	0.740	0.98
341_F	346_V	0.738	0.98
101_N	110_L	0.733	0.98
158_V	210_A	0.729	0.98
156_E	165_L	0.729	0.98
225_Q	230_H	0.724	0.98
118_I	243_I	0.721	0.98
259_S	263_E	0.720	0.98
67_P	96_Y	0.718	0.98
258_I	261_R	0.718	0.98
145_A	183_I	0.717	0.98
257_V	261_R	0.717	0.98
395_K	399_D	0.715	0.98
338_Q	350_F	0.713	0.98
259_S	262_V	0.713	0.98
90_V	378_A	0.713	0.98
288_A	315_N	0.712	0.98
170_D	220_A	0.711	0.98
49_R	56_A	0.707	0.98
74_L	89_A	0.706	0.98
322_L	326_L	0.705	0.98
358_I	380_L	0.705	0.98
346_V	387_L	0.704	0.98
22_Q	28_L	0.703	0.98
287_L	313_T	0.703	0.98
345_G	392_D	0.702	0.98
256_K	294_D	0.701	0.98
373_R	377_E	0.697	0.97
103_D	138_V	0.697	0.97
346_V	396_V	0.690	0.97
393_V	398_I	0.689	0.97
294_D	298_F	0.688	0.97
156_E	183_I	0.687	0.97
257_V	260_H	0.684	0.97
30_A	35_Y	0.683	0.97
142_M	216_E	0.682	0.97
99_L	129_A	0.681	0.97
99_L	384_M	0.681	0.97
101_N	336_Q	0.679	0.97
76_D	335_K	0.677	0.97
18_C	21_S	0.676	0.97
128_L	314_L	0.671	0.97
137_D	175_K	0.669	0.97
26_R	38_D	0.665	0.97
183_I	239_D	0.665	0.97
354_A	380_L	0.663	0.97
231_P	234_E	0.663	0.97
15_C	23_H	0.662	0.97
338_Q	349_E	0.662	0.97
19_G	26_R	0.661	0.97
19_G	28_L	0.660	0.96
183_I	214_L	0.659	0.96
209_Q	301_I	0.658	0.96
355_L	372_L	0.656	0.96
147_T	232_Q	0.654	0.96
15_C	28_L	0.653	0.96
306_G	374_S	0.652	0.96
152_G	225_Q	0.648	0.96
67_P	93_Y	0.646	0.96
355_L	359_A	0.646	0.96
292_P	295_L	0.646	0.96
383_T	398_I	0.644	0.96
142_M	217_G	0.643	0.96
34_V	37_C	0.643	0.96
210_A	220_A	0.642	0.96
191_R	301_I	0.641	0.96
341_F	380_L	0.639	0.96
75_D	315_N	0.638	0.96
49_R	52_I	0.636	0.96
216_E	304_F	0.635	0.96
394_E	399_D	0.634	0.96
19_G	25_V	0.632	0.96
338_Q	341_F	0.632	0.96
39_E	47_I	0.632	0.96
127_L	333_L	0.632	0.96
305_I	311_V	0.630	0.95
353_E	357_A	0.629	0.95
97_K	344_E	0.629	0.95
186_I	243_I	0.629	0.95
35_Y	38_D	0.628	0.95
326_L	372_L	0.628	0.95
342_N	345_G	0.628	0.95
219_V	233_Q	0.628	0.95
152_G	168_K	0.627	0.95
134_R	137_D	0.626	0.95
117_L	312_A	0.626	0.95
22_Q	30_A	0.623	0.95
334_T	380_L	0.622	0.95
63_A	96_Y	0.622	0.95
300_L	308_L	0.622	0.95
373_R	382_D	0.621	0.95
20_K	39_E	0.621	0.95
166_L	169_C	0.620	0.95
186_I	300_L	0.619	0.95
257_V	294_D	0.617	0.95
360_K	400_E	0.617	0.95
159_E	162_I	0.617	0.95
174_Q	178_R	0.611	0.95
91_A	112_K	0.611	0.95
174_Q	228_R	0.609	0.95
257_V	262_V	0.609	0.95
94_N	381_L	0.609	0.95
359_A	363_M	0.608	0.94
84_A	312_A	0.607	0.94
64_L	68_H	0.607	0.94
141_T	172_D	0.604	0.94
78_V	142_M	0.604	0.94
157_D	160_N	0.601	0.94
75_D	79_I	0.600	0.94
16_S	26_R	0.598	0.94
20_K	26_R	0.598	0.94
56_A	59_R	0.597	0.94
88_L	117_L	0.596	0.94
358_I	362_A	0.595	0.94
238_V	243_I	0.595	0.94
23_H	29_I	0.594	0.94
387_L	392_D	0.590	0.94
283_E	288_A	0.589	0.94
271_G	274_V	0.589	0.94
384_M	396_V	0.588	0.93
149_T	207_V	0.588	0.93
101_N	233_Q	0.587	0.93
156_E	161_I	0.586	0.93
86_K	382_D	0.585	0.93
52_I	55_V	0.585	0.93
339_A	343_L	0.584	0.93
101_N	340_L	0.584	0.93
162_I	166_L	0.583	0.93
326_L	350_F	0.582	0.93
310_V	378_A	0.579	0.93
65_P	68_H	0.579	0.93
260_H	264_T	0.578	0.93
341_F	345_G	0.578	0.93
286_L	292_P	0.577	0.93
348_L	380_L	0.575	0.93
138_V	381_L	0.575	0.93
376_V	380_L	0.572	0.93
149_T	225_Q	0.572	0.93
256_K	262_V	0.571	0.92
260_H	294_D	0.570	0.92
20_K	27_K	0.569	0.92
284_G	315_N	0.567	0.92
74_L	85_K	0.567	0.92
17_F	22_Q	0.565	0.92
274_V	277_K	0.563	0.92
232_Q	236_L	0.561	0.92
90_V	93_Y	0.559	0.92
170_D	230_H	0.557	0.92
181_V	220_A	0.556	0.91
95_H	112_K	0.556	0.91
215_I	237_Q	0.555	0.91
56_A	60_E	0.554	0.91
62_S	137_D	0.553	0.91
291_E	295_L	0.552	0.91
186_I	298_F	0.550	0.91
149_T	381_L	0.550	0.91
354_A	357_A	0.550	0.91
173_V	179_G	0.549	0.91
152_G	221_A	0.549	0.91
71_R	82_E	0.548	0.91
217_G	229_K	0.548	0.91
28_L	31_G	0.548	0.91
393_V	400_E	0.547	0.91
47_I	50_E	0.544	0.91
164_K	226_G	0.544	0.91
163_Q	236_L	0.544	0.91
186_I	239_D	0.544	0.91
42_D	45_N	0.543	0.90
394_E	400_E	0.543	0.90
148_L	152_G	0.542	0.90
192_K	209_Q	0.541	0.90
166_L	171_Y	0.540	0.90
143_A	152_G	0.540	0.90
391_E	395_K	0.539	0.90
272_A	276_A	0.538	0.90
283_E	291_E	0.537	0.90
53_K	59_R	0.537	0.90
138_V	176_A	0.536	0.90
149_T	154_V	0.535	0.90
123_S	127_L	0.534	0.90
15_C	39_E	0.534	0.90
34_V	39_E	0.533	0.90
26_R	30_A	0.533	0.90
143_A	210_A	0.530	0.89
33_S	38_D	0.529	0.89
27_K	31_G	0.529	0.89
50_E	64_L	0.529	0.89
27_K	30_A	0.528	0.89
338_Q	346_V	0.528	0.89
17_F	23_H	0.527	0.89
177_Q	241_S	0.526	0.89
215_I	304_F	0.525	0.89
83_Q	287_L	0.525	0.89
110_L	216_E	0.525	0.89
220_A	232_Q	0.524	0.89
161_I	225_Q	0.522	0.89
37_C	40_C	0.522	0.89
100_R	231_P	0.522	0.89
83_Q	87_V	0.521	0.89
208_Q	300_L	0.521	0.89
15_C	26_R	0.521	0.89
157_D	163_Q	0.520	0.89
15_C	32_P	0.518	0.88
45_N	51_E	0.517	0.88
341_F	383_T	0.517	0.88
120_P	241_S	0.517	0.88
289_Q	292_P	0.516	0.88
163_Q	169_C	0.516	0.88
162_I	214_L	0.515	0.88
16_S	25_V	0.515	0.88
97_K	388_P	0.514	0.88
110_L	309_P	0.514	0.88
88_L	115_I	0.512	0.88
103_D	116_L	0.510	0.88
156_E	225_Q	0.510	0.88
220_A	225_Q	0.509	0.87
148_L	153_Y	0.507	0.87
75_D	131_T	0.507	0.87
181_V	235_F	0.504	0.87
328_E	335_K	0.503	0.87
41_V	45_N	0.502	0.87
166_L	222_V	0.501	0.87
65_P	73_H	0.500	0.87
123_S	232_Q	0.500	0.87

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
1r6bX	1	0.809	100	0.468	Contact Map
1qvrA	3	0.8113	100	0.501	Contact Map
4d2uA	3	0.8066	100	0.52	Contact Map
3pxiA	3	0.7429	100	0.526	Contact Map
4ciuA	1	0.8137	100	0.558	Contact Map
1um8A	1	0.7358	100	0.59	Contact Map
3hwsA	3	0.7948	100	0.597	Contact Map
4lj9A	1	0.7594	100	0.617	Contact Map
1g41A	3	0.7005	100	0.648	Contact Map
1ofhA	3	0.7146	100	0.666	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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