CDC64 - HALSA - GREMLIN Contacts

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CDC64 - ORC1-type DNA replication protein 4

UniProt:	Q9HHJ7	Sequences: MTPDSSPSSVDDPLFESGHRIFANKDLLKIGHVPEADRIVGRDEEISKLAKRLNGAVHGYSPENVMIYGKTGTGKSLVSKHVCQRAQNAAQDGVEIGTAYIDCAEDNTETQAISSLAAKLNDESSTGISVPHTGLSTSKYYKLLWKTLDAQFDSVIIILDEIDLMNDDSVLMKLSRAEEAGKIDCSVGVIAISNKIQYVDNVNERVKSSFQHKELFFKPYDANQLREIMFNREDAFQDGVLSEDVIPLSAAFAAQEHGDARKAIDILRHAGEVAYEAGAELVTEEHVRQAQQHAEKDRFRELVNGAPTQAKAALLALTELSVNSNDDAFLTSRVYDQYEHICNHLDMDILSVRRFRDILKEQAFLGVVEIEKINKGSAGGIHLQNRLIEDSQVVRETILEDSRMQDWTRE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	410 (359)
Sequences:	1904 (1399)
Seq/√Len:	73.9

HALSA - CDC64 CDC6A CDC68 CDC65 CDC67 CDC66 Q9HNS7 CDC62 CDC69
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
277_A	286_H	4.430	1.00
225_L	260_A	4.063	1.00
141_Y	145_W	3.239	1.00
252_F	256_E	3.195	1.00
103_C	159_L	3.105	1.00
49_L	65_V	3.101	1.00
307_P	310_A	3.070	1.00
339_E	343_N	2.867	1.00
205_R	209_S	2.861	1.00
83_C	158_I	2.795	1.00
45_E	218_K	2.778	1.00
139_K	143_L	2.778	1.00
317_L	368_V	2.751	1.00
258_G	261_R	2.722	1.00
41_G	227_E	2.687	1.00
309_Q	338_Y	2.588	1.00
253_A	256_E	2.530	1.00
279_A	286_H	2.464	1.00
352_V	356_R	2.446	1.00
141_Y	148_L	2.435	1.00
144_L	148_L	2.379	1.00
286_H	290_A	2.378	1.00
39_I	77_L	2.348	1.00
137_T	145_W	2.276	1.00
115_S	118_A	2.263	1.00
140_Y	148_L	2.187	1.00
200_D	205_R	2.169	1.00
354_R	357_D	2.133	1.00
140_Y	145_W	2.132	1.00
176_R	209_S	2.111	1.00
236_F	271_G	2.084	1.00
161_E	194_N	2.051	1.00
247_P	251_A	2.013	1.00
257_H	261_R	2.005	1.00
42_R	45_E	1.981	1.00
162_I	191_A	1.973	1.00
335_Y	339_E	1.967	1.00
115_S	119_K	1.932	1.00
221_D	224_Q	1.928	1.00
309_Q	349_I	1.918	1.00
145_W	148_L	1.894	1.00
222_A	251_A	1.884	1.00
283_T	286_H	1.867	1.00
349_I	353_R	1.792	1.00
25_K	272_E	1.781	1.00
244_D	247_P	1.781	1.00
241_L	282_V	1.775	1.00
80_K	100_Y	1.771	1.00
22_F	271_G	1.765	1.00
353_R	356_R	1.764	1.00
168_D	172_M	1.763	1.00
102_D	172_M	1.761	1.00
139_K	145_W	1.749	1.00
277_A	289_Q	1.727	1.00
252_F	255_Q	1.676	1.00
172_M	205_R	1.671	1.00
52_R	65_V	1.657	1.00
241_L	245_V	1.634	1.00
254_A	258_G	1.632	1.00
136_S	139_K	1.610	0.99
241_L	247_P	1.603	0.99
332_S	343_N	1.599	0.99
352_V	355_F	1.598	0.99
163_D	194_N	1.587	0.99
79_S	192_I	1.576	0.99
138_S	142_K	1.566	0.99
329_F	334_V	1.554	0.99
226_R	247_P	1.537	0.99
46_I	78_V	1.537	0.99
282_V	287_V	1.535	0.99
350_L	355_F	1.516	0.99
66_M	162_I	1.512	0.99
208_S	211_Q	1.504	0.99
42_R	220_Y	1.487	0.99
137_T	141_Y	1.472	0.99
226_R	230_F	1.468	0.99
356_R	359_L	1.464	0.99
140_Y	143_L	1.459	0.99
142_K	145_W	1.455	0.99
230_F	243_E	1.429	0.99
65_V	190_I	1.421	0.99
280_E	286_H	1.413	0.99
245_V	249_S	1.398	0.99
143_L	146_K	1.390	0.98
338_Y	342_C	1.378	0.98
53_L	82_V	1.374	0.98
197_Q	201_N	1.360	0.98
335_Y	338_Y	1.352	0.98
298_R	302_L	1.350	0.98
142_K	147_T	1.346	0.98
173_K	177_A	1.346	0.98
284_E	288_R	1.338	0.98
78_V	217_F	1.336	0.98
354_R	358_I	1.322	0.98
353_R	357_D	1.320	0.98
359_L	365_L	1.317	0.98
284_E	287_V	1.308	0.98
140_Y	147_T	1.295	0.98
143_L	147_T	1.289	0.97
316_A	341_I	1.283	0.97
172_M	176_R	1.279	0.97
330_L	333_R	1.277	0.97
334_V	385_N	1.275	0.97
245_V	248_L	1.274	0.97
141_Y	147_T	1.269	0.97
376_G	380_G	1.265	0.97
232_R	235_A	1.264	0.97
220_Y	228_I	1.261	0.97
248_L	288_R	1.260	0.97
28_L	232_R	1.259	0.97
258_G	262_K	1.243	0.97
172_M	208_S	1.239	0.97
355_F	362_Q	1.234	0.97
112_A	170_V	1.227	0.97
144_L	147_T	1.210	0.96
248_L	252_F	1.202	0.96
206_V	212_H	1.202	0.96
175_S	178_E	1.201	0.96
268_R	272_E	1.196	0.96
311_K	314_L	1.188	0.96
355_F	359_L	1.182	0.96
53_L	190_I	1.181	0.96
285_E	288_R	1.177	0.96
203_N	206_V	1.173	0.96
355_F	358_I	1.168	0.95
28_L	235_A	1.165	0.95
96_I	102_D	1.164	0.95
330_L	367_V	1.160	0.95
287_V	292_Q	1.156	0.95
358_I	361_E	1.156	0.95
300_R	304_N	1.151	0.95
137_T	147_T	1.150	0.95
65_V	215_L	1.145	0.95
313_A	317_L	1.144	0.95
169_S	173_K	1.137	0.95
290_A	294_A	1.134	0.95
34_P	39_I	1.130	0.95
50_A	85_R	1.127	0.94
136_S	148_L	1.124	0.94
342_C	345_L	1.121	0.94
25_K	275_Y	1.110	0.94
241_L	248_L	1.106	0.94
139_K	142_K	1.102	0.94
388_I	393_V	1.100	0.94
208_S	259_D	1.100	0.94
181_G	184_D	1.096	0.94
168_D	176_R	1.096	0.94
103_C	309_Q	1.095	0.94
178_E	181_G	1.094	0.94
350_L	358_I	1.094	0.94
93_G	96_I	1.090	0.93
390_D	393_V	1.089	0.93
351_S	357_D	1.088	0.93
363_A	368_V	1.085	0.93
107_N	111_Q	1.081	0.93
242_S	281_L	1.080	0.93
169_S	172_M	1.080	0.93
267_L	290_A	1.078	0.93
96_I	103_C	1.077	0.93
281_L	287_V	1.074	0.93
168_D	171_L	1.064	0.93
357_D	361_E	1.064	0.93
140_Y	144_L	1.061	0.92
273_V	276_E	1.058	0.92
283_T	287_V	1.058	0.92
250_A	263_A	1.045	0.92
285_E	289_Q	1.044	0.92
40_V	231_N	1.036	0.92
73_T	224_Q	1.036	0.92
53_L	57_V	1.035	0.91
290_A	293_H	1.033	0.91
135_L	144_L	1.030	0.91
286_H	292_Q	1.029	0.91
171_L	176_R	1.025	0.91
176_R	179_E	1.025	0.91
190_I	304_N	1.023	0.91
389_E	393_V	1.014	0.91
240_V	244_D	1.014	0.91
194_N	258_G	1.014	0.91
172_M	209_S	1.013	0.91
323_N	337_Q	1.011	0.91
49_L	96_I	1.010	0.90
240_V	246_I	1.006	0.90
340_H	344_H	1.005	0.90
102_D	161_E	1.005	0.90
281_L	289_Q	1.004	0.90
64_N	212_H	1.001	0.90
239_G	243_E	0.995	0.90
98_T	158_I	0.991	0.90
269_H	272_E	0.987	0.89
374_N	380_G	0.985	0.89
270_A	290_A	0.983	0.89
174_L	177_A	0.981	0.89
136_S	141_Y	0.975	0.89
336_D	340_H	0.973	0.89
359_L	368_V	0.971	0.89
350_L	370_I	0.969	0.89
167_D	170_V	0.967	0.88
309_Q	319_E	0.966	0.88
141_Y	146_K	0.963	0.88
259_D	262_K	0.962	0.88
46_I	81_H	0.961	0.88
206_V	209_S	0.958	0.88
350_L	359_L	0.954	0.88
175_S	209_S	0.954	0.88
325_N	332_S	0.951	0.88
220_Y	232_R	0.950	0.88
325_N	334_V	0.949	0.88
220_Y	259_D	0.947	0.87
338_Y	349_I	0.945	0.87
251_A	256_E	0.943	0.87
137_T	144_L	0.942	0.87
109_E	113_I	0.939	0.87
194_N	217_F	0.932	0.87
113_I	177_A	0.932	0.87
359_L	370_I	0.926	0.86
354_R	361_E	0.926	0.86
77_L	106_D	0.924	0.86
283_T	290_A	0.924	0.86
306_A	362_Q	0.922	0.86
56_A	154_S	0.921	0.86
392_Q	396_E	0.917	0.86
217_F	220_Y	0.916	0.86
317_L	334_V	0.914	0.85
325_N	328_A	0.911	0.85
329_F	333_R	0.909	0.85
342_C	346_D	0.908	0.85
178_E	184_D	0.908	0.85
102_D	105_E	0.907	0.85
354_R	359_L	0.906	0.85
375_K	379_G	0.904	0.85
52_R	215_L	0.903	0.85
291_Q	295_E	0.899	0.85
287_V	290_A	0.899	0.85
160_D	228_I	0.896	0.84
103_C	165_M	0.896	0.84
353_R	359_L	0.895	0.84
296_K	302_L	0.894	0.84
271_G	274_A	0.892	0.84
69_G	74_G	0.888	0.84
318_T	322_V	0.887	0.84
335_Y	342_C	0.883	0.83
331_T	355_F	0.880	0.83
60_Y	236_F	0.879	0.83
137_T	140_Y	0.877	0.83
274_A	282_V	0.875	0.83
141_Y	144_L	0.875	0.83
315_L	319_E	0.873	0.83
111_Q	114_S	0.873	0.83
217_F	261_R	0.873	0.83
315_L	318_T	0.872	0.83
133_T	136_S	0.869	0.82
205_R	208_S	0.864	0.82
229_M	263_A	0.861	0.82
162_I	198_Y	0.860	0.82
117_A	121_N	0.858	0.82
265_D	268_R	0.855	0.81
245_V	252_F	0.852	0.81
314_L	367_V	0.852	0.81
352_V	359_L	0.850	0.81
358_I	362_Q	0.848	0.81
226_R	250_A	0.847	0.81
64_N	159_L	0.847	0.81
52_R	272_E	0.846	0.81
351_S	362_Q	0.844	0.81
172_M	206_V	0.844	0.81
303_V	314_L	0.844	0.81
135_L	139_K	0.841	0.80
225_L	229_M	0.839	0.80
101_I	119_K	0.831	0.80
364_F	368_V	0.820	0.79
215_L	288_R	0.817	0.78
371_E	375_K	0.815	0.78
291_Q	294_A	0.814	0.78
263_A	270_A	0.812	0.78
45_E	217_F	0.811	0.78
42_R	228_I	0.809	0.78
335_Y	355_F	0.807	0.78
107_N	116_L	0.807	0.78
332_S	336_D	0.806	0.77
351_S	355_F	0.804	0.77
353_R	361_E	0.802	0.77
273_V	286_H	0.800	0.77
391_S	395_R	0.800	0.77
358_I	365_L	0.798	0.77
203_N	208_S	0.798	0.77
359_L	363_A	0.796	0.77
200_D	203_N	0.796	0.77
366_G	377_S	0.792	0.76
87_Q	98_T	0.789	0.76
134_G	139_K	0.788	0.76
352_V	358_I	0.786	0.76
42_R	232_R	0.786	0.76
101_I	112_A	0.785	0.76
228_I	261_R	0.783	0.75
355_F	361_E	0.782	0.75
132_H	137_T	0.782	0.75
136_S	140_Y	0.780	0.75
23_A	88_N	0.774	0.75
331_T	334_V	0.774	0.75
22_F	26_D	0.774	0.75
289_Q	293_H	0.772	0.74
308_T	312_A	0.766	0.74
299_F	306_A	0.764	0.74
52_R	191_A	0.762	0.73
23_A	27_L	0.761	0.73
177_A	193_S	0.761	0.73
259_D	265_D	0.760	0.73
335_Y	345_L	0.759	0.73
121_N	124_S	0.758	0.73
134_G	145_W	0.757	0.73
68_Y	199_V	0.756	0.73
162_I	165_M	0.755	0.73
393_V	397_T	0.754	0.73
93_G	100_Y	0.748	0.72
133_T	139_K	0.748	0.72
103_C	112_A	0.748	0.72
161_E	261_R	0.745	0.72
71_T	194_N	0.745	0.72
266_I	291_Q	0.745	0.72
296_K	299_F	0.744	0.72
106_D	115_S	0.744	0.72
227_E	230_F	0.743	0.72
335_Y	341_I	0.742	0.71
376_G	379_G	0.741	0.71
138_S	141_Y	0.740	0.71
359_L	362_Q	0.740	0.71
137_T	143_L	0.739	0.71
307_P	317_L	0.730	0.70
310_A	314_L	0.729	0.70
69_G	72_G	0.729	0.70
338_Y	341_I	0.728	0.70
335_Y	343_N	0.726	0.70
79_S	145_W	0.726	0.70
51_K	150_A	0.725	0.70
251_A	262_K	0.725	0.70
240_V	243_E	0.724	0.70
250_A	254_A	0.724	0.70
69_G	75_K	0.723	0.69
204_E	207_K	0.723	0.69
84_Q	88_N	0.718	0.69
317_L	387_L	0.717	0.69
79_S	199_V	0.717	0.69
51_K	227_E	0.716	0.69
377_S	380_G	0.713	0.68
280_E	283_T	0.711	0.68
22_F	25_K	0.708	0.68
230_F	234_D	0.708	0.68
229_M	246_I	0.707	0.68
351_S	359_L	0.705	0.67
232_R	264_I	0.704	0.67
132_H	144_L	0.704	0.67
23_A	31_G	0.699	0.67
253_A	263_A	0.698	0.67
335_Y	352_V	0.697	0.67
311_K	320_L	0.693	0.66
392_Q	395_R	0.692	0.66
66_M	193_S	0.685	0.65
251_A	258_G	0.684	0.65
309_Q	312_A	0.683	0.65
38_R	231_N	0.683	0.65
314_L	319_E	0.682	0.65
219_P	290_A	0.681	0.65
162_I	194_N	0.680	0.65
360_K	364_F	0.680	0.65
71_T	233_E	0.676	0.64
56_A	191_A	0.672	0.64
320_L	333_R	0.670	0.64
251_A	254_A	0.669	0.63
140_Y	146_K	0.668	0.63
311_K	318_T	0.667	0.63
137_T	146_K	0.667	0.63
167_D	173_K	0.666	0.63
72_G	161_E	0.666	0.63
251_A	255_Q	0.665	0.63
299_F	367_V	0.664	0.63
188_G	192_I	0.664	0.63
42_R	264_I	0.663	0.63
42_R	259_D	0.663	0.63
190_I	266_I	0.663	0.63
312_A	332_S	0.662	0.63
66_M	113_I	0.662	0.63
306_A	365_L	0.660	0.62
29_K	32_H	0.659	0.62
117_A	123_E	0.659	0.62
244_D	249_S	0.657	0.62
67_I	79_S	0.656	0.62
220_Y	261_R	0.653	0.62
314_L	362_Q	0.653	0.62
120_L	316_A	0.651	0.61
304_N	310_A	0.648	0.61
135_L	145_W	0.648	0.61
165_M	172_M	0.647	0.61
196_I	259_D	0.646	0.61
48_K	51_K	0.640	0.60
116_L	144_L	0.640	0.60
373_I	377_S	0.639	0.60
65_V	120_L	0.636	0.60
394_V	398_I	0.635	0.59
314_L	317_L	0.632	0.59
332_S	350_L	0.628	0.59
220_Y	225_L	0.628	0.59
228_I	259_D	0.627	0.58
354_R	364_F	0.627	0.58
351_S	356_R	0.626	0.58
228_I	264_I	0.626	0.58
106_D	116_L	0.624	0.58
68_Y	194_N	0.622	0.58
334_V	338_Y	0.622	0.58
99_A	119_K	0.620	0.58
68_Y	193_S	0.617	0.57
106_D	113_I	0.616	0.57
102_D	259_D	0.616	0.57
72_G	228_I	0.615	0.57
72_G	160_D	0.615	0.57
317_L	320_L	0.611	0.57
161_E	174_L	0.611	0.57
274_A	278_G	0.610	0.56
195_K	212_H	0.609	0.56
252_F	288_R	0.608	0.56
167_D	171_L	0.608	0.56
362_Q	365_L	0.606	0.56
209_S	212_H	0.605	0.56
137_T	142_K	0.605	0.56
306_A	310_A	0.604	0.56
253_A	266_I	0.604	0.56
97_G	283_T	0.602	0.55
68_Y	195_K	0.602	0.55
227_E	240_V	0.601	0.55
64_N	116_L	0.600	0.55
329_F	338_Y	0.599	0.55
282_V	286_H	0.598	0.55
356_R	365_L	0.598	0.55
326_D	333_R	0.597	0.55
80_K	98_T	0.597	0.55
260_A	263_A	0.594	0.54
349_I	362_Q	0.594	0.54
25_K	29_K	0.593	0.54
332_S	346_D	0.592	0.54
342_C	347_M	0.592	0.54
42_R	160_D	0.591	0.54
350_L	362_Q	0.588	0.54
310_A	361_E	0.587	0.54
320_L	329_F	0.586	0.53
172_M	175_S	0.586	0.53
70_K	264_I	0.586	0.53
339_E	367_V	0.585	0.53
250_A	258_G	0.583	0.53
177_A	181_G	0.583	0.53
280_E	295_E	0.583	0.53
283_T	292_Q	0.582	0.53
292_Q	295_E	0.582	0.53
255_Q	263_A	0.581	0.53
228_I	317_L	0.580	0.53
307_P	314_L	0.580	0.53
273_V	293_H	0.579	0.53
202_V	205_R	0.578	0.52
319_E	326_D	0.577	0.52
389_E	395_R	0.574	0.52
352_V	362_Q	0.574	0.52
303_V	311_K	0.573	0.52
365_L	370_I	0.573	0.52
243_E	247_P	0.572	0.52
24_N	32_H	0.572	0.52
392_Q	398_I	0.571	0.52
231_N	236_F	0.571	0.52
341_I	346_D	0.570	0.51
112_A	116_L	0.569	0.51
75_K	161_E	0.567	0.51
220_Y	258_G	0.566	0.51
162_I	362_Q	0.564	0.51
314_L	318_T	0.564	0.51
257_H	262_K	0.563	0.51
302_L	307_P	0.563	0.51
289_Q	294_A	0.562	0.50
133_T	138_S	0.562	0.50
42_R	225_L	0.557	0.50
145_W	150_A	0.555	0.50
316_A	320_L	0.554	0.49
199_V	214_E	0.553	0.49
368_V	376_G	0.546	0.48
66_M	201_N	0.546	0.48
389_E	397_T	0.545	0.48
233_E	241_L	0.544	0.48
109_E	165_M	0.543	0.48
25_K	32_H	0.542	0.48
117_A	122_D	0.542	0.48
370_I	374_N	0.540	0.48
217_F	225_L	0.537	0.47
338_Y	345_L	0.536	0.47
156_I	237_Q	0.534	0.47
158_I	192_I	0.533	0.47
215_L	277_A	0.533	0.47
205_R	210_F	0.533	0.47
116_L	155_V	0.532	0.47
385_N	388_I	0.530	0.46
203_N	212_H	0.530	0.46
197_Q	212_H	0.527	0.46
56_A	249_S	0.527	0.46
286_H	291_Q	0.526	0.46
113_I	173_K	0.526	0.46
307_P	312_A	0.526	0.46
342_C	349_I	0.525	0.46
215_L	349_I	0.522	0.45
252_F	257_H	0.522	0.45
136_S	144_L	0.521	0.45
332_S	335_Y	0.521	0.45
98_T	340_H	0.521	0.45
222_A	247_P	0.519	0.45
281_L	286_H	0.519	0.45
160_D	258_G	0.519	0.45
242_S	249_S	0.518	0.45
45_E	224_Q	0.518	0.45
319_E	358_I	0.518	0.45
217_F	282_V	0.517	0.45
96_I	156_I	0.516	0.45
30_I	33_V	0.514	0.44
309_Q	359_L	0.514	0.44
247_P	255_Q	0.512	0.44
173_K	211_Q	0.511	0.44
201_N	206_V	0.510	0.44
307_P	311_K	0.509	0.44
386_R	393_V	0.508	0.44
135_L	140_Y	0.506	0.44
287_V	295_E	0.506	0.44
138_S	144_L	0.506	0.44
214_E	297_D	0.506	0.44
239_G	247_P	0.506	0.44
222_A	254_A	0.505	0.43
220_Y	264_I	0.504	0.43
263_A	271_G	0.504	0.43
199_V	358_I	0.504	0.43
356_R	362_Q	0.503	0.43
318_T	394_V	0.502	0.43
338_Y	366_G	0.502	0.43
165_M	201_N	0.500	0.43
39_I	43_D	0.500	0.43
56_A	63_E	0.500	0.43

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	0.878	100	0.389	Contact Map
4xgcA	1	0.7488	100	0.392	Contact Map
2v1uA	1	0.9171	100	0.397	Contact Map
1w5sA	1	0.8951	100	0.456	Contact Map
2qbyB	1	0.8707	100	0.464	Contact Map
4xgcD	1	0.9268	100	0.468	Contact Map
1fnnA	1	0.8927	100	0.481	Contact Map
3te6A	1	0.6512	100	0.602	Contact Map
4xgcE	1	0.8585	100	0.651	Contact Map
2c9oA	3	0.6463	99.9	0.701	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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