CDC6A - HALSA - GREMLIN Contacts

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CDC6A - ORC1-type DNA replication protein 10

UniProt:	Q9HSW6	Sequences: MLSMPSFERKQNIFANKDALGESYQPNKIEERDDEIEKYMDALQPVIDGWEPNNIFVYGNTGVGKTAVTDHLLDQLQTDVEAYDDVTLSVIYLNCKTLSSSYQVAVELVNKLRRPGAEISSTGYPQQSVFKKLYQELEALGGTILIVLDEVDAIGDRDDLLYELPRARSQGNLEDAKVGIIGISNDYKFQEQLDPRVQDTLCERELQFPPYDALELANILDSRTDIAIADDSLAEGVTQHCAALAARDSGSARQALDLLRLAGELAENQDADAISTDHVEAARSELERERVEEGMRELTTHGRLTLLAVVSKAAKADTPSRTRAIYDEYASLCKSAANTDDPLKQRSVHNHLSDLHMLGILSKYENRSGSRGNYYSYELDVPFESAVDAMADVLMLDAEIEKMEGLASRNGVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	413 (353)
Sequences:	2279 (1622)
Seq/√Len:	86.3

HALSA - CDC6A CDC68 CDC65 CDC64 CDC67 CDC66 Q9HNS7 CDC69 CDC62
SULSO - CDC62 CDC61 CDC63

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
245_A	248_D	5.829	1.00
271_A	278_H	4.128	1.00
345_Q	349_H	2.630	1.00
233_L	237_V	2.598	1.00
269_Q	278_H	2.569	1.00
275_S	278_H	2.508	1.00
330_A	334_K	2.406	1.00
276_T	279_V	2.399	1.00
326_Y	330_A	2.381	1.00
345_Q	348_V	2.211	1.00
162_Y	166_R	2.206	1.00
271_A	275_S	2.186	1.00
95_C	148_L	2.177	1.00
299_T	302_G	2.111	1.00
233_L	239_Q	2.099	1.00
342_P	346_R	2.087	1.00
347_S	350_N	2.068	1.00
237_V	240_H	2.039	1.00
39_Y	55_I	2.034	1.00
191_E	196_R	2.019	1.00
163_E	167_A	1.989	1.00
275_S	279_V	1.977	1.00
241_C	244_L	1.968	1.00
212_D	215_E	1.942	1.00
169_S	173_L	1.937	1.00
165_P	168_R	1.913	1.00
160_L	164_L	1.911	1.00
340_D	345_Q	1.900	1.00
326_Y	329_Y	1.889	1.00
159_D	164_L	1.878	1.00
159_D	162_Y	1.873	1.00
229_A	232_S	1.868	1.00
160_L	163_E	1.867	1.00
35_E	209_P	1.865	1.00
162_Y	165_P	1.859	1.00
31_E	218_N	1.837	1.00
346_R	349_H	1.827	1.00
98_L	108_L	1.822	1.00
329_Y	333_C	1.793	1.00
236_G	239_Q	1.785	1.00
319_P	323_R	1.783	1.00
233_L	240_H	1.776	1.00
320_S	325_I	1.767	1.00
331_S	335_S	1.766	1.00
309_V	361_L	1.764	1.00
235_E	240_H	1.758	1.00
166_R	169_S	1.753	1.00
160_L	165_P	1.746	1.00
163_E	166_R	1.743	1.00
73_L	147_V	1.739	1.00
343_L	348_V	1.733	1.00
344_K	348_V	1.722	1.00
164_L	168_R	1.717	1.00
303_R	306_L	1.679	1.00
239_Q	243_A	1.653	1.00
349_H	352_L	1.650	1.00
351_H	354_D	1.649	1.00
160_L	166_R	1.636	1.00
353_S	357_M	1.633	1.00
99_S	108_L	1.629	1.00
329_Y	332_L	1.628	1.00
327_D	331_S	1.626	1.00
271_A	279_V	1.622	1.00
278_H	282_A	1.616	1.00
319_P	333_C	1.614	1.00
163_E	169_S	1.606	1.00
158_D	162_Y	1.602	1.00
281_A	284_S	1.599	1.00
302_G	306_L	1.599	1.00
235_E	239_Q	1.597	1.00
29_I	67_A	1.596	1.00
220_L	255_A	1.595	1.00
228_I	263_G	1.576	1.00
291_V	294_G	1.559	1.00
347_S	351_H	1.540	1.00
164_L	167_A	1.540	1.00
162_Y	167_A	1.529	1.00
56_F	151_V	1.526	1.00
328_E	331_S	1.526	1.00
350_N	353_S	1.516	1.00
333_C	336_A	1.511	1.00
159_D	163_E	1.493	0.99
301_H	329_Y	1.477	0.99
348_V	352_L	1.473	0.99
128_S	132_K	1.453	0.99
233_L	236_G	1.440	0.99
310_V	314_A	1.433	0.99
347_S	357_M	1.431	0.99
312_K	315_K	1.422	0.99
340_D	343_L	1.419	0.99
307_L	311_S	1.417	0.99
352_L	356_H	1.417	0.99
343_L	349_H	1.415	0.99
291_V	295_M	1.413	0.99
107_E	110_N	1.413	0.99
354_D	358_L	1.412	0.99
309_V	312_K	1.392	0.99
274_I	279_V	1.389	0.99
321_R	324_A	1.383	0.99
269_Q	281_A	1.382	0.99
350_N	354_D	1.381	0.99
165_P	169_S	1.378	0.99
352_L	358_L	1.374	0.99
290_R	294_G	1.374	0.99
323_R	327_D	1.371	0.99
236_G	240_H	1.369	0.99
152_D	185_N	1.366	0.99
341_D	345_Q	1.357	0.99
333_C	337_A	1.352	0.99
164_L	169_S	1.352	0.99
99_S	109_V	1.351	0.99
341_D	348_V	1.349	0.99
107_E	111_K	1.336	0.99
227_A	230_D	1.332	0.99
162_Y	168_R	1.326	0.99
240_H	244_L	1.317	0.99
32_R	35_E	1.315	0.99
341_D	349_H	1.304	0.99
345_Q	351_H	1.300	0.99
340_D	346_R	1.295	0.99
160_L	167_A	1.291	0.99
273_A	278_H	1.285	0.98
308_A	312_K	1.284	0.98
227_A	231_D	1.282	0.98
319_P	322_T	1.281	0.98
151_V	182_G	1.281	0.98
228_I	231_D	1.270	0.98
191_E	194_D	1.265	0.98
325_I	329_Y	1.256	0.98
346_R	350_N	1.253	0.98
237_V	241_C	1.252	0.98
353_S	356_H	1.245	0.98
150_E	185_N	1.238	0.98
344_K	352_L	1.228	0.98
95_C	154_I	1.223	0.98
217_A	221_D	1.207	0.98
160_L	168_R	1.198	0.98
26_P	29_I	1.192	0.97
193_L	202_C	1.191	0.97
306_L	310_V	1.191	0.97
234_A	239_Q	1.170	0.97
272_D	278_H	1.167	0.97
36_I	68_V	1.156	0.97
163_E	168_R	1.156	0.97
277_D	281_A	1.154	0.97
343_L	351_H	1.153	0.97
323_R	326_Y	1.143	0.97
303_R	307_L	1.138	0.97
350_N	355_L	1.138	0.97
311_S	314_A	1.136	0.97
349_H	358_L	1.135	0.97
320_S	323_R	1.133	0.97
196_R	199_D	1.131	0.97
341_D	344_K	1.119	0.96
306_L	312_K	1.116	0.96
309_V	314_A	1.115	0.96
213_A	243_A	1.112	0.96
274_I	277_D	1.108	0.96
265_L	268_N	1.104	0.96
277_D	280_E	1.093	0.96
344_K	349_H	1.092	0.96
340_D	349_H	1.092	0.96
332_L	335_S	1.089	0.96
318_T	326_Y	1.089	0.96
273_A	279_V	1.082	0.96
332_L	336_A	1.080	0.95
272_D	275_S	1.078	0.95
326_Y	333_C	1.077	0.95
127_Q	134_Y	1.076	0.95
299_T	303_R	1.073	0.95
321_R	326_Y	1.071	0.95
135_Q	139_A	1.069	0.95
159_D	166_R	1.068	0.95
42_A	55_I	1.063	0.95
318_T	329_Y	1.062	0.95
244_L	247_R	1.062	0.95
292_E	296_R	1.057	0.95
342_P	349_H	1.056	0.95
349_H	353_S	1.055	0.95
319_P	326_Y	1.054	0.95
305_T	312_K	1.054	0.95
345_Q	353_S	1.052	0.95
354_D	357_M	1.043	0.95
166_R	200_T	1.039	0.94
130_F	134_Y	1.038	0.94
273_A	277_D	1.033	0.94
303_R	312_K	1.031	0.94
126_Q	130_F	1.029	0.94
340_D	352_L	1.024	0.94
352_L	361_L	1.020	0.94
95_C	99_S	1.020	0.94
134_Y	137_L	1.019	0.94
250_G	253_R	1.018	0.94
251_S	254_Q	1.018	0.94
233_L	274_I	1.017	0.94
42_A	264_E	1.013	0.94
279_V	284_S	1.012	0.94
159_D	168_R	1.010	0.94
345_Q	352_L	1.003	0.93
301_H	311_S	1.003	0.93
352_L	355_L	1.001	0.93
227_A	232_S	0.987	0.93
377_Y	380_D	0.986	0.93
326_Y	334_K	0.981	0.93
98_L	109_V	0.980	0.92
348_V	357_M	0.978	0.92
320_S	330_A	0.974	0.92
70_D	92_Y	0.969	0.92
343_L	352_L	0.968	0.92
322_T	326_Y	0.967	0.92
231_D	235_E	0.963	0.92
343_L	346_R	0.961	0.92
325_I	333_C	0.956	0.92
307_L	310_V	0.956	0.92
241_C	245_A	0.952	0.91
309_V	313_A	0.946	0.91
199_D	202_C	0.945	0.91
341_D	352_L	0.944	0.91
325_I	332_L	0.943	0.91
284_S	288_R	0.943	0.91
347_S	358_L	0.938	0.91
159_D	165_P	0.934	0.91
279_V	282_A	0.926	0.90
240_H	280_E	0.925	0.90
133_L	137_L	0.923	0.90
250_G	254_Q	0.921	0.90
237_V	244_L	0.920	0.90
302_G	309_V	0.914	0.90
193_L	196_R	0.912	0.90
313_A	317_D	0.910	0.89
274_I	278_H	0.909	0.89
320_S	324_A	0.907	0.89
319_P	337_A	0.906	0.89
211_Y	219_I	0.902	0.89
360_I	363_K	0.901	0.89
308_A	332_L	0.900	0.89
353_S	358_L	0.900	0.89
344_K	350_N	0.899	0.89
306_L	309_V	0.897	0.89
234_A	240_H	0.894	0.89
224_T	259_L	0.893	0.89
217_A	239_Q	0.892	0.88
185_N	250_G	0.888	0.88
305_T	309_V	0.882	0.88
374_Y	377_Y	0.882	0.88
344_K	353_S	0.880	0.88
160_L	169_S	0.876	0.88
300_T	304_L	0.875	0.87
323_R	334_K	0.873	0.87
356_H	361_L	0.872	0.87
351_H	358_L	0.871	0.87
282_A	286_L	0.867	0.87
342_P	348_V	0.866	0.87
99_S	103_Q	0.862	0.87
346_R	352_L	0.862	0.87
20_L	227_A	0.862	0.87
341_D	346_R	0.861	0.87
317_D	325_I	0.861	0.87
301_H	305_T	0.860	0.87
260_R	264_E	0.858	0.86
345_Q	350_N	0.856	0.86
94_N	162_Y	0.855	0.86
359_G	362_S	0.849	0.86
32_R	211_Y	0.849	0.86
357_M	361_L	0.846	0.86
342_P	345_Q	0.845	0.86
162_Y	169_S	0.842	0.85
310_V	313_A	0.841	0.85
270_D	274_I	0.839	0.85
317_D	329_Y	0.837	0.85
312_K	316_A	0.837	0.85
322_T	325_I	0.835	0.85
326_Y	336_A	0.834	0.85
347_S	354_D	0.833	0.85
317_D	321_R	0.831	0.85
350_N	356_H	0.830	0.85
272_D	279_V	0.829	0.85
345_Q	358_L	0.824	0.84
162_Y	196_R	0.824	0.84
329_Y	336_A	0.819	0.84
320_S	332_L	0.817	0.84
59_G	64_G	0.815	0.84
306_L	314_A	0.813	0.83
343_L	353_S	0.812	0.83
211_Y	253_R	0.809	0.83
126_Q	134_Y	0.808	0.83
194_D	197_V	0.807	0.83
348_V	353_S	0.806	0.83
301_H	342_P	0.803	0.83
234_A	238_T	0.800	0.82
345_Q	355_L	0.799	0.82
228_I	232_S	0.789	0.81
384_E	388_D	0.786	0.81
349_H	357_M	0.783	0.81
230_D	274_I	0.783	0.81
323_R	374_Y	0.783	0.81
191_E	195_P	0.781	0.81
301_H	308_A	0.781	0.81
300_T	303_R	0.780	0.81
351_H	357_M	0.780	0.81
55_I	181_I	0.779	0.81
276_T	280_E	0.778	0.81
129_V	137_L	0.776	0.80
191_E	202_C	0.775	0.80
342_P	352_L	0.769	0.80
194_D	199_D	0.767	0.80
108_L	111_K	0.766	0.80
349_H	355_L	0.759	0.79
282_A	288_R	0.758	0.79
195_P	198_Q	0.758	0.79
347_S	352_L	0.756	0.79
316_A	337_A	0.754	0.78
353_S	360_I	0.753	0.78
348_V	354_D	0.753	0.78
352_L	363_K	0.752	0.78
259_L	279_V	0.752	0.78
283_R	286_L	0.744	0.78
234_A	273_A	0.744	0.78
347_S	353_S	0.742	0.77
43_L	72_L	0.742	0.77
129_V	132_K	0.741	0.77
188_K	192_Q	0.741	0.77
319_P	330_A	0.740	0.77
317_D	331_S	0.739	0.77
68_V	208_F	0.738	0.77
298_L	302_G	0.737	0.77
344_K	347_S	0.735	0.77
38_K	41_D	0.734	0.77
127_Q	131_K	0.731	0.76
194_D	202_C	0.730	0.76
270_D	277_D	0.726	0.76
238_T	242_A	0.725	0.76
293_E	297_E	0.722	0.75
72_L	76_L	0.722	0.75
30_E	222_S	0.718	0.75
351_H	355_L	0.718	0.75
282_A	285_E	0.716	0.75
193_L	200_T	0.713	0.75
302_G	305_T	0.712	0.74
349_H	363_K	0.708	0.74
382_P	385_S	0.707	0.74
307_L	314_A	0.706	0.74
59_G	65_K	0.706	0.74
162_Y	199_D	0.704	0.74
302_G	312_K	0.699	0.73
220_L	238_T	0.699	0.73
84_D	90_V	0.697	0.73
154_I	160_L	0.696	0.73
221_D	235_E	0.696	0.73
196_R	202_C	0.694	0.73
340_D	353_S	0.694	0.73
345_Q	357_M	0.694	0.73
299_T	304_L	0.693	0.72
218_N	221_D	0.693	0.72
295_M	301_H	0.693	0.72
348_V	351_H	0.690	0.72
265_L	269_Q	0.688	0.72
54_N	203_E	0.687	0.72
216_L	220_L	0.686	0.72
340_D	344_K	0.684	0.71
211_Y	223_R	0.684	0.71
319_P	329_Y	0.683	0.71
348_V	356_H	0.683	0.71
376_S	379_L	0.682	0.71
43_L	181_I	0.680	0.71
259_L	274_I	0.680	0.71
275_S	288_R	0.679	0.71
103_Q	106_V	0.679	0.71
306_L	315_K	0.674	0.70
197_V	200_T	0.673	0.70
234_A	237_V	0.671	0.70
265_L	278_H	0.671	0.70
318_T	325_I	0.670	0.70
342_P	347_S	0.668	0.70
303_R	315_K	0.667	0.70
41_D	265_L	0.666	0.69
104_V	108_L	0.666	0.69
90_V	147_V	0.661	0.69
352_L	360_I	0.659	0.69
308_A	311_S	0.657	0.68
323_R	337_A	0.656	0.68
236_G	244_L	0.655	0.68
354_D	360_I	0.652	0.68
319_P	334_K	0.649	0.67
323_R	332_L	0.648	0.67
346_R	354_D	0.645	0.67
244_L	280_E	0.643	0.67
213_A	246_A	0.642	0.67
273_A	276_T	0.641	0.66
217_A	242_A	0.640	0.66
321_R	325_I	0.640	0.66
314_A	387_V	0.639	0.66
151_V	189_F	0.639	0.66
320_S	326_Y	0.638	0.66
340_D	360_I	0.637	0.66
347_S	361_L	0.637	0.66
367_R	371_R	0.635	0.66
196_R	200_T	0.633	0.66
304_L	329_Y	0.633	0.66
320_S	334_K	0.633	0.66
193_L	197_V	0.633	0.66
36_I	71_H	0.632	0.65
288_R	291_V	0.631	0.65
151_V	154_I	0.631	0.65
208_F	211_Y	0.631	0.65
355_L	358_L	0.629	0.65
232_S	235_E	0.628	0.65
101_S	105_A	0.628	0.65
348_V	358_L	0.627	0.65
348_V	355_L	0.627	0.65
151_V	352_L	0.626	0.65
343_L	347_S	0.619	0.64
87_T	143_T	0.618	0.64
326_Y	332_L	0.618	0.64
164_L	173_L	0.617	0.64
327_D	330_A	0.617	0.64
355_L	359_G	0.615	0.63
332_L	337_A	0.615	0.63
320_S	333_C	0.614	0.63
323_R	336_A	0.614	0.63
105_A	167_A	0.613	0.63
320_S	329_Y	0.612	0.63
98_L	107_E	0.611	0.63
69_T	190_Q	0.610	0.63
32_R	256_L	0.608	0.62
344_K	355_L	0.607	0.62
258_L	283_R	0.606	0.62
304_L	307_L	0.604	0.62
158_D	166_R	0.603	0.62
318_T	321_R	0.602	0.62
262_A	282_A	0.601	0.62
328_E	335_S	0.601	0.62
302_G	311_S	0.601	0.62
59_G	62_G	0.600	0.61
344_K	356_H	0.598	0.61
347_S	356_H	0.594	0.61
159_D	167_A	0.593	0.60
130_F	163_E	0.593	0.60
344_K	354_D	0.592	0.60
330_A	333_C	0.592	0.60
380_D	385_S	0.590	0.60
104_V	160_L	0.588	0.60
69_T	183_I	0.586	0.60
350_N	359_G	0.585	0.59
40_M	75_Q	0.584	0.59
320_S	337_A	0.582	0.59
328_E	333_C	0.582	0.59
32_R	223_R	0.581	0.59
195_P	202_C	0.581	0.59
318_T	336_A	0.580	0.59
261_L	264_E	0.579	0.59
301_H	312_K	0.578	0.59
41_D	268_N	0.577	0.58
279_V	286_L	0.575	0.58
62_G	149_D	0.573	0.58
257_D	260_R	0.573	0.58
98_L	105_A	0.571	0.58
195_P	200_T	0.571	0.58
331_S	334_K	0.570	0.57
28_K	222_S	0.569	0.57
278_H	284_S	0.569	0.57
343_L	367_R	0.567	0.57
343_L	350_N	0.563	0.57
247_R	255_A	0.561	0.56
193_L	199_D	0.561	0.56
362_S	365_E	0.558	0.56
151_V	205_E	0.558	0.56
255_A	260_R	0.556	0.56
158_D	167_A	0.554	0.55
369_G	372_G	0.554	0.55
318_T	322_T	0.554	0.55
309_V	379_L	0.553	0.55
241_C	248_D	0.552	0.55
273_A	302_G	0.551	0.55
303_R	311_S	0.550	0.55
74_D	78_T	0.549	0.55
77_Q	90_V	0.548	0.55
210_P	282_A	0.547	0.54
306_L	360_I	0.544	0.54
240_H	243_A	0.543	0.54
162_Y	200_T	0.543	0.54
310_V	317_D	0.539	0.53
296_R	302_G	0.538	0.53
298_L	355_L	0.537	0.53
346_R	360_I	0.535	0.53
302_G	315_K	0.533	0.53
333_C	342_P	0.533	0.53
340_D	347_S	0.533	0.53
20_L	26_P	0.531	0.52
306_L	311_S	0.529	0.52
381_V	385_S	0.529	0.52
298_L	311_S	0.528	0.52
65_K	150_E	0.528	0.52
95_C	137_L	0.526	0.52
325_I	337_A	0.526	0.52
281_A	286_L	0.525	0.51
306_L	317_D	0.525	0.51
315_K	337_A	0.523	0.51
316_A	329_Y	0.523	0.51
158_D	161_L	0.523	0.51
271_A	276_T	0.522	0.51
67_A	257_D	0.521	0.51
303_R	310_V	0.520	0.51
327_D	347_S	0.519	0.51
194_D	198_Q	0.518	0.51
56_F	184_S	0.517	0.50
57_V	69_T	0.517	0.50
133_L	136_E	0.517	0.50
108_L	133_L	0.514	0.50
20_L	223_R	0.514	0.50
242_A	245_A	0.514	0.50
309_V	320_S	0.513	0.50
206_L	327_D	0.512	0.50
151_V	315_K	0.512	0.50
298_L	358_L	0.511	0.50
130_F	137_L	0.510	0.49
39_Y	206_L	0.510	0.49
262_A	266_A	0.508	0.49
316_A	319_P	0.508	0.49
359_G	363_K	0.507	0.49
250_G	262_A	0.506	0.49
185_N	208_F	0.505	0.49
379_L	383_F	0.504	0.49
362_S	366_N	0.503	0.49
304_L	312_K	0.503	0.49
239_Q	244_L	0.503	0.49
278_H	288_R	0.502	0.48
291_V	298_L	0.500	0.48
197_V	203_E	0.500	0.48
94_N	97_T	0.500	0.48

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
2qbyA	1	0.8789	100	0.384	Contact Map
2v1uA	1	0.9177	100	0.391	Contact Map
4xgcA	1	0.7433	100	0.398	Contact Map
1w5sA	1	0.9056	100	0.438	Contact Map
2qbyB	1	0.8741	100	0.46	Contact Map
4xgcD	1	0.9177	100	0.465	Contact Map
1fnnA	1	0.8862	100	0.477	Contact Map
3te6A	1	0.6513	100	0.6	Contact Map
4xgcE	1	0.8208	100	0.636	Contact Map
4ko8A	3	0.6174	100	0.696	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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