CDC68 - HALSA - GREMLIN Contacts

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CDC68 - ORC1-type DNA replication protein 8

UniProt:	Q9HQC7	Sequences: MKTPFRDRVELFANKDVLKDHYEPEEIRERDEEIDQYANALQDVVDGWEPDNVFVYGKTGVGKTAVTRYMMDALEYEADDRDGVDSVTSVEVNCHHHPSSYQAAIALVNELRGDTDSDPLTTGLSTSDVLNALFDEIEAREGTVLIVLDEIDNLDDDDMLLYQLPRAKTNGNIEDSQVAVVGISNDYTFRNDLSPKVQDTLCEREIKFPPYDANELVTILDDRAERALSSGVLTGGVIPQCAALAARDRGSARQAIDLLRESVNVAIEDERETVTEDDVETAVRRVERGRIKDSIKDLTTHGQYVLLAVTQTAIADDTPVRAKELYEVYADIAAEYASDPLSQRSVHDHLNDLSMLGFLRQHDRNYGRGGGQFFEYELDVDATMVQEAIADADDATV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	397 (333)
Sequences:	2547 (1852)
Seq/√Len:	101.5

HALSA - CDC68 CDC6A CDC65 CDC64 CDC67 CDC66 Q9HNS7 CDC69 CDC62 CDC61
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
271_R	278_D	3.966	1.00
244_L	247_R	3.027	1.00
343_Q	347_H	2.646	1.00
330_A	334_A	2.634	1.00
269_D	278_D	2.546	1.00
275_T	278_D	2.437	1.00
342_S	346_V	2.437	1.00
343_Q	346_V	2.415	1.00
344_R	347_H	2.276	1.00
239_P	243_A	2.203	1.00
299_T	302_G	2.142	1.00
237_V	241_C	2.076	1.00
231_G	235_G	2.057	1.00
163_Q	166_R	2.014	1.00
230_S	233_L	2.012	1.00
340_P	344_R	1.973	1.00
326_Y	330_A	1.973	1.00
162_Y	166_R	1.973	1.00
17_V	21_H	1.955	1.00
163_Q	167_A	1.941	1.00
275_T	279_V	1.898	1.00
94_C	148_L	1.883	1.00
276_E	279_V	1.863	1.00
331_D	335_E	1.828	1.00
232_V	236_G	1.822	1.00
341_L	346_V	1.816	1.00
347_H	350_L	1.799	1.00
315_A	319_P	1.797	1.00
325_L	329_Y	1.796	1.00
160_L	163_Q	1.795	1.00
233_L	237_V	1.788	1.00
160_L	166_R	1.785	1.00
350_L	354_S	1.781	1.00
230_S	235_G	1.772	1.00
308_A	312_T	1.762	1.00
346_V	350_L	1.761	1.00
316_D	319_P	1.742	1.00
327_E	331_D	1.739	1.00
37_Y	53_V	1.729	1.00
29_E	218_T	1.729	1.00
345_S	349_H	1.727	1.00
290_R	294_S	1.719	1.00
164_L	167_A	1.709	1.00
236_G	239_P	1.707	1.00
345_S	348_D	1.705	1.00
76_Y	79_D	1.701	1.00
328_V	331_D	1.678	1.00
271_R	275_T	1.658	1.00
71_M	147_V	1.643	1.00
33_E	209_P	1.643	1.00
192_D	197_V	1.631	1.00
237_V	240_Q	1.617	1.00
322_A	326_Y	1.613	1.00
235_G	239_P	1.613	1.00
351_N	355_M	1.609	1.00
350_L	356_L	1.606	1.00
220_L	255_A	1.605	1.00
240_Q	243_A	1.604	1.00
278_D	282_A	1.603	1.00
329_Y	333_A	1.600	1.00
303_Q	306_L	1.595	1.00
191_N	196_K	1.592	1.00
160_L	165_P	1.590	1.00
217_V	221_D	1.578	1.00
236_G	243_A	1.575	1.00
301_H	329_Y	1.571	1.00
212_D	215_E	1.571	1.00
342_S	347_H	1.564	1.00
193_L	198_Q	1.562	1.00
27_I	65_A	1.537	1.00
299_T	303_Q	1.531	1.00
342_S	350_L	1.530	1.00
333_A	337_A	1.524	1.00
54_F	151_I	1.502	1.00
231_G	237_V	1.499	1.00
319_P	323_K	1.494	1.00
135_D	139_A	1.493	1.00
231_G	234_T	1.489	1.00
232_V	235_G	1.482	1.00
330_A	333_A	1.481	1.00
164_L	168_K	1.480	1.00
159_M	162_Y	1.479	1.00
305_V	309_V	1.471	1.00
315_A	326_Y	1.466	1.00
236_G	240_Q	1.444	1.00
160_L	164_L	1.441	1.00
344_R	348_D	1.427	1.00
323_K	327_E	1.418	1.00
274_V	279_V	1.413	1.00
233_L	239_P	1.411	1.00
291_I	294_S	1.410	1.00
319_P	333_A	1.406	1.00
233_L	236_G	1.406	1.00
193_L	197_V	1.405	1.00
350_L	353_L	1.393	1.00
319_P	322_A	1.389	1.00
162_Y	165_P	1.369	0.99
151_I	182_G	1.358	0.99
191_N	197_V	1.357	0.99
233_L	240_Q	1.352	0.99
326_Y	329_Y	1.350	0.99
231_G	240_Q	1.345	0.99
298_L	302_G	1.345	0.99
217_V	239_P	1.341	0.99
302_G	306_L	1.331	0.99
318_T	329_Y	1.326	0.99
283_V	286_V	1.309	0.99
272_E	275_T	1.297	0.99
298_L	305_V	1.296	0.99
150_E	185_N	1.286	0.99
231_G	236_G	1.280	0.99
250_G	254_Q	1.272	0.99
230_S	236_G	1.271	0.99
307_L	311_Q	1.265	0.99
165_P	168_K	1.255	0.99
321_R	324_E	1.252	0.99
272_E	278_D	1.239	0.99
307_L	310_T	1.234	0.99
270_E	274_V	1.229	0.99
323_K	334_A	1.228	0.99
273_T	279_V	1.220	0.99
320_V	325_L	1.211	0.99
343_Q	349_H	1.209	0.99
301_H	304_Y	1.205	0.99
279_V	282_A	1.204	0.99
319_P	334_A	1.195	0.99
193_L	196_K	1.193	0.99
224_A	259_L	1.193	0.99
332_I	337_A	1.185	0.98
237_V	243_A	1.185	0.98
341_L	350_L	1.183	0.98
277_D	281_T	1.181	0.98
162_Y	167_A	1.179	0.98
293_D	297_D	1.179	0.98
269_D	281_T	1.172	0.98
344_R	350_L	1.172	0.98
303_Q	307_L	1.171	0.98
234_T	240_Q	1.167	0.98
24_P	27_I	1.163	0.98
265_V	268_E	1.159	0.98
231_G	243_A	1.151	0.98
160_L	167_A	1.149	0.98
348_D	352_D	1.146	0.98
274_V	277_D	1.142	0.98
154_L	162_Y	1.131	0.98
260_R	264_N	1.129	0.98
343_Q	348_D	1.127	0.98
309_V	359_L	1.122	0.98
230_S	234_T	1.121	0.98
128_D	132_A	1.120	0.98
341_L	347_H	1.117	0.98
279_V	286_V	1.114	0.98
343_Q	350_L	1.112	0.98
341_L	344_R	1.109	0.98
326_Y	334_A	1.106	0.98
318_T	321_R	1.100	0.98
152_D	185_N	1.098	0.97
271_R	279_V	1.087	0.97
346_V	353_L	1.087	0.97
295_I	301_H	1.087	0.97
274_V	278_D	1.087	0.97
301_H	340_P	1.086	0.97
341_L	349_H	1.079	0.97
341_L	354_S	1.076	0.97
342_S	353_L	1.075	0.97
251_S	254_Q	1.064	0.97
194_S	198_Q	1.064	0.97
323_K	332_I	1.063	0.97
302_G	305_V	1.062	0.97
346_V	349_H	1.061	0.97
160_L	168_K	1.059	0.97
161_L	166_R	1.059	0.97
292_K	296_K	1.056	0.97
40_A	53_V	1.053	0.97
249_R	254_Q	1.053	0.97
196_K	199_D	1.051	0.97
30_R	33_E	1.048	0.97
329_Y	332_I	1.031	0.96
342_S	345_S	1.030	0.96
231_G	239_P	1.029	0.96
234_T	243_A	1.028	0.96
94_C	154_L	1.023	0.96
345_S	350_L	1.023	0.96
316_D	320_V	1.019	0.96
163_Q	168_K	1.017	0.96
230_S	239_P	1.016	0.96
273_T	278_D	1.013	0.96
235_G	243_A	1.012	0.96
352_D	356_L	1.009	0.96
301_H	305_V	1.008	0.96
320_V	324_E	1.006	0.96
230_S	240_Q	1.001	0.96
316_D	337_A	0.997	0.96
361_Q	364_R	0.994	0.95
244_L	249_R	0.991	0.95
235_G	240_Q	0.990	0.95
317_D	321_R	0.990	0.95
355_M	359_L	0.989	0.95
265_V	278_D	0.989	0.95
232_V	239_P	0.987	0.95
199_D	202_C	0.986	0.95
281_T	284_R	0.979	0.95
272_E	276_E	0.974	0.95
323_K	337_A	0.973	0.95
343_Q	351_N	0.965	0.95
340_P	343_Q	0.965	0.95
194_S	197_V	0.961	0.95
245_A	248_D	0.957	0.94
329_Y	336_Y	0.956	0.94
346_V	352_D	0.954	0.94
343_Q	353_L	0.952	0.94
297_D	301_H	0.949	0.94
232_V	237_V	0.947	0.94
308_A	311_Q	0.947	0.94
306_L	310_T	0.940	0.94
41_L	45_V	0.939	0.94
191_N	198_Q	0.935	0.94
234_T	273_T	0.934	0.94
333_A	336_Y	0.933	0.94
162_Y	196_K	0.931	0.94
66_V	208_F	0.922	0.93
351_N	354_S	0.921	0.93
288_R	294_S	0.921	0.93
98_P	164_L	0.921	0.93
346_V	355_M	0.918	0.93
344_R	353_L	0.917	0.93
341_L	345_S	0.916	0.93
347_H	356_L	0.914	0.93
159_M	163_Q	0.914	0.93
347_H	351_N	0.913	0.93
304_Y	308_A	0.913	0.93
240_Q	244_L	0.909	0.93
315_A	320_V	0.909	0.93
39_N	268_E	0.907	0.93
255_A	260_R	0.905	0.93
295_I	306_L	0.900	0.92
340_P	346_V	0.899	0.92
309_V	313_A	0.898	0.92
350_L	359_L	0.891	0.92
323_K	326_Y	0.891	0.92
346_V	351_N	0.889	0.92
279_V	284_R	0.889	0.92
277_D	280_E	0.888	0.92
316_D	332_I	0.883	0.92
232_V	240_Q	0.880	0.92
323_K	336_Y	0.874	0.91
342_S	351_N	0.873	0.91
166_R	200_T	0.863	0.91
223_R	229_S	0.862	0.91
334_A	337_A	0.859	0.91
41_L	70_M	0.859	0.91
282_A	286_V	0.857	0.90
300_T	303_Q	0.855	0.90
221_D	235_G	0.854	0.90
342_S	348_D	0.853	0.90
316_D	333_A	0.852	0.90
301_H	308_A	0.852	0.90
273_T	277_D	0.850	0.90
302_G	309_V	0.847	0.90
316_D	325_L	0.844	0.90
108_V	133_L	0.842	0.90
286_V	294_S	0.836	0.89
340_P	345_S	0.833	0.89
306_L	309_V	0.832	0.89
284_R	288_R	0.830	0.89
353_L	357_G	0.828	0.89
340_P	350_L	0.828	0.89
297_D	303_Q	0.828	0.89
347_H	355_M	0.827	0.89
315_A	333_A	0.823	0.89
315_A	336_Y	0.822	0.89
230_S	237_V	0.821	0.88
342_S	352_D	0.819	0.88
218_T	221_D	0.811	0.88
322_A	350_L	0.810	0.88
234_T	239_P	0.809	0.88
272_E	279_V	0.808	0.88
302_G	311_Q	0.805	0.88
326_Y	333_A	0.804	0.87
291_I	295_I	0.802	0.87
349_H	353_L	0.801	0.87
348_D	351_N	0.800	0.87
265_V	269_D	0.798	0.87
195_P	198_Q	0.798	0.87
281_T	286_V	0.795	0.87
197_V	200_T	0.792	0.87
353_L	356_L	0.788	0.86
316_D	323_K	0.784	0.86
342_S	356_L	0.780	0.86
244_L	250_G	0.780	0.86
345_S	355_M	0.778	0.86
278_D	281_T	0.778	0.86
273_T	281_T	0.778	0.86
354_S	359_L	0.772	0.85
211_Y	219_I	0.771	0.85
316_D	330_A	0.771	0.85
162_Y	168_K	0.768	0.85
320_V	330_A	0.766	0.85
236_G	241_C	0.762	0.84
233_L	274_V	0.762	0.84
344_R	351_N	0.760	0.84
349_H	352_D	0.759	0.84
338_S	344_R	0.755	0.84
188_T	192_D	0.754	0.84
34_I	66_V	0.746	0.83
351_N	356_L	0.746	0.83
339_D	343_Q	0.745	0.83
343_Q	355_M	0.741	0.83
299_T	309_V	0.741	0.83
319_P	326_Y	0.741	0.83
304_Y	307_L	0.740	0.83
320_V	332_I	0.737	0.82
220_L	238_I	0.734	0.82
196_K	200_T	0.730	0.82
270_E	277_D	0.728	0.82
39_N	265_V	0.727	0.82
299_T	304_Y	0.726	0.82
276_E	280_E	0.726	0.82
68_R	91_E	0.726	0.82
193_L	199_D	0.724	0.81
321_R	326_Y	0.722	0.81
365_N	368_R	0.721	0.81
289_G	293_D	0.721	0.81
351_N	358_F	0.721	0.81
352_D	355_M	0.720	0.81
314_I	325_L	0.719	0.81
259_L	279_V	0.717	0.81
303_Q	310_T	0.717	0.81
246_A	250_G	0.717	0.81
332_I	336_Y	0.716	0.81
327_E	333_A	0.716	0.81
317_D	323_K	0.716	0.81
347_H	353_L	0.713	0.80
162_Y	199_D	0.713	0.80
159_M	164_L	0.712	0.80
261_E	264_N	0.711	0.80
282_A	288_R	0.711	0.80
361_Q	365_N	0.710	0.80
341_L	351_N	0.710	0.80
217_V	238_I	0.709	0.80
340_P	347_H	0.709	0.80
347_H	354_S	0.709	0.80
322_A	325_L	0.707	0.80
93_N	96_H	0.704	0.80
325_L	333_A	0.704	0.80
338_S	358_F	0.703	0.79
271_R	274_V	0.702	0.79
290_R	297_D	0.701	0.79
41_L	181_V	0.696	0.79
233_L	243_A	0.696	0.79
270_E	281_T	0.694	0.79
289_G	311_Q	0.693	0.78
296_K	301_H	0.692	0.78
255_A	263_V	0.692	0.78
302_G	310_T	0.690	0.78
230_S	243_A	0.690	0.78
288_R	291_I	0.688	0.78
191_N	199_D	0.687	0.78
282_A	285_R	0.680	0.77
112_R	115_T	0.679	0.77
147_V	183_I	0.678	0.77
331_D	336_Y	0.678	0.77
162_Y	200_T	0.676	0.77
273_T	282_A	0.676	0.77
36_Q	39_N	0.673	0.76
28_R	222_D	0.672	0.76
316_D	326_Y	0.672	0.76
359_L	363_D	0.671	0.76
57_G	62_G	0.669	0.76
234_T	237_V	0.668	0.76
309_V	312_T	0.668	0.76
93_N	162_Y	0.667	0.76
315_A	323_K	0.667	0.76
208_F	211_Y	0.665	0.76
154_L	179_A	0.664	0.75
95_H	164_L	0.663	0.75
94_C	97_H	0.660	0.75
307_L	312_T	0.658	0.75
299_T	306_L	0.658	0.75
75_E	79_D	0.657	0.75
272_E	282_A	0.656	0.75
245_A	249_R	0.655	0.74
245_A	250_G	0.654	0.74
108_V	112_R	0.653	0.74
134_F	137_I	0.652	0.74
130_L	134_F	0.652	0.74
217_V	242_A	0.650	0.74
86_S	143_T	0.648	0.74
57_G	60_G	0.648	0.74
310_T	313_A	0.648	0.74
350_L	358_F	0.645	0.73
320_V	323_K	0.644	0.73
130_L	163_Q	0.644	0.73
338_S	347_H	0.641	0.73
235_G	241_C	0.641	0.73
338_S	350_L	0.639	0.73
306_L	311_Q	0.637	0.72
297_D	307_L	0.636	0.72
326_Y	336_Y	0.636	0.72
314_I	336_Y	0.634	0.72
340_P	348_D	0.631	0.72
308_A	332_I	0.630	0.72
53_V	206_I	0.630	0.72
312_T	316_D	0.629	0.71
376_Y	379_D	0.629	0.71
345_S	352_D	0.623	0.71
346_V	354_S	0.618	0.70
256_I	260_R	0.618	0.70
315_A	334_A	0.613	0.70
379_D	384_M	0.610	0.69
373_F	376_Y	0.610	0.69
324_E	327_E	0.609	0.69
275_T	286_V	0.608	0.69
255_A	259_L	0.608	0.69
273_T	276_E	0.606	0.69
37_Y	87_V	0.605	0.69
185_N	250_G	0.604	0.68
315_A	329_Y	0.604	0.68
320_V	334_A	0.603	0.68
349_H	355_M	0.603	0.68
356_L	359_L	0.603	0.68
303_Q	311_Q	0.602	0.68
229_S	238_I	0.601	0.68
161_L	165_P	0.600	0.68
362_H	366_Y	0.597	0.68
270_E	276_E	0.596	0.67
314_I	318_T	0.593	0.67
346_V	356_L	0.593	0.67
191_N	195_P	0.592	0.67
53_V	181_V	0.591	0.67
291_I	302_G	0.591	0.67
256_I	264_N	0.590	0.67
325_L	336_Y	0.586	0.66
325_L	337_A	0.586	0.66
318_T	334_A	0.583	0.66
349_H	356_L	0.581	0.65
315_A	318_T	0.577	0.65
248_D	254_Q	0.576	0.65
155_D	158_D	0.574	0.65
323_K	333_A	0.573	0.64
113_G	133_L	0.573	0.64
341_L	353_L	0.573	0.64
312_T	315_A	0.571	0.64
308_A	313_A	0.571	0.64
230_S	241_C	0.569	0.64
281_T	288_R	0.569	0.64
107_L	133_L	0.567	0.64
107_L	110_E	0.567	0.64
34_I	69_Y	0.566	0.63
314_I	332_I	0.566	0.63
298_L	301_H	0.563	0.63
296_K	300_T	0.562	0.63
231_G	241_C	0.562	0.63
322_A	329_Y	0.559	0.62
233_L	241_C	0.556	0.62
43_D	47_G	0.556	0.62
271_R	284_R	0.554	0.62
234_T	238_I	0.552	0.62
130_L	137_I	0.550	0.61
232_V	238_I	0.550	0.61
108_V	114_D	0.550	0.61
266_A	274_V	0.547	0.61
338_S	345_S	0.545	0.61
18_L	24_P	0.545	0.61
278_D	284_R	0.545	0.61
315_A	330_A	0.545	0.61
315_A	325_L	0.544	0.60
327_E	332_I	0.544	0.60
317_D	320_V	0.542	0.60
52_N	203_E	0.542	0.60
278_D	286_V	0.540	0.60
326_Y	337_A	0.539	0.60
325_L	332_I	0.539	0.60
206_I	269_D	0.539	0.60
90_V	151_I	0.538	0.60
87_V	94_C	0.538	0.60
316_D	329_Y	0.535	0.59
338_S	343_Q	0.526	0.58
234_T	241_C	0.524	0.58
320_V	329_Y	0.523	0.57
194_S	199_D	0.523	0.57
210_P	282_A	0.523	0.57
298_L	306_L	0.522	0.57
30_R	211_Y	0.520	0.57
298_L	307_L	0.517	0.57
318_T	326_Y	0.516	0.56
339_D	342_S	0.515	0.56
67_T	190_R	0.514	0.56
57_G	63_K	0.514	0.56
213_A	243_A	0.513	0.56
272_E	277_D	0.513	0.56
149_D	219_I	0.512	0.56
192_D	196_K	0.510	0.56
301_H	307_L	0.509	0.55
46_D	131_N	0.508	0.55
296_K	302_G	0.504	0.55
216_L	220_L	0.504	0.55
328_V	333_A	0.503	0.55
356_L	361_Q	0.501	0.54
318_T	322_A	0.500	0.54

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	0.9144	100	0.363	Contact Map
2v1uA	1	0.9496	100	0.377	Contact Map
4xgcA	1	0.7733	100	0.38	Contact Map
1w5sA	1	0.937	100	0.423	Contact Map
2qbyB	1	0.9093	100	0.425	Contact Map
1fnnA	1	0.9194	100	0.456	Contact Map
4xgcD	1	0.932	100	0.461	Contact Map
3te6A	1	0.6751	100	0.586	Contact Map
4xgcE	1	0.8287	100	0.635	Contact Map
4ko8A	3	0.6398	100	0.673	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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