CDC66 - HALSA - GREMLIN Contacts

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CDC66 - ORC1-type DNA replication protein 6

UniProt:	Q9HN34	Sequences: MDEDPEEGLLGWGETVFRDEHVFEIDYVPEVFRHRESQLQTLQYALRPAVRGSRPLNVVARGPPGTGKTTAVQKLFGELSGQPGVQTVRVNCQVDSTRYAVFSRVFEEIFDYEPPSSGISFKKLFGQVAERIADDDEVLVVALDDVNYLFYEDEAGDTLYSLLRAHETQPGAKVGVVVVSSDLELDVIEALDGRVQSVFRPEEAYFSAYDRAEITDILRDRVEVGFREGAVAEPVLDAVGGRTDEAGDLRVGIDVLRRAGLHAESRASKTVEMEDVDAVYEDAKHVHLSRTLAALSDNERALVRTVAEQEGDRAGDVYDVFNDRTDLGYTRYTEIVNKLDELGVIDAAYEQRSGRGRSRTLRLTHDSEAVLERL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	374 (294)
Sequences:	2923 (1957)
Seq/√Len:	114.1

HALSA - CDC66 CDC6A CDC68 CDC64 CDC65 Q9HNS7 CDC67 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
268_S	275_D	3.765	1.00
329_Y	333_T	3.573	1.00
215_T	237_D	3.446	1.00
317_V	321_F	3.422	1.00
222_V	256_L	3.141	1.00
208_A	246_A	3.025	1.00
266_R	275_D	3.004	1.00
318_Y	321_F	2.944	1.00
218_L	252_G	2.810	1.00
215_T	219_R	2.754	1.00
272_E	275_D	2.677	1.00
256_L	276_V	2.673	1.00
238_A	241_G	2.550	1.00
266_R	278_A	2.542	1.00
194_R	197_S	2.465	1.00
296_S	299_E	2.375	1.00
222_V	236_L	2.260	1.00
318_Y	322_N	2.244	1.00
322_N	326_D	2.241	1.00
237_D	241_G	2.155	1.00
321_F	324_R	2.154	1.00
328_G	331_R	2.142	1.00
320_V	323_D	2.117	1.00
192_D	197_S	2.110	1.00
313_R	316_D	2.085	1.00
42_L	58_V	2.050	1.00
328_G	332_Y	2.043	1.00
92_C	143_L	2.019	1.00
38_Q	207_S	2.007	1.00
194_R	198_V	1.975	1.00
192_D	195_V	1.967	1.00
321_F	325_T	1.957	1.00
296_S	300_R	1.952	1.00
210_D	213_E	1.951	1.00
306_V	345_I	1.948	1.00
161_S	165_A	1.937	1.00
243_T	247_G	1.906	1.00
329_Y	332_Y	1.899	1.00
197_S	200_R	1.876	1.00
331_R	334_E	1.871	1.00
275_D	279_V	1.845	1.00
336_V	339_L	1.835	1.00
231_V	237_D	1.821	1.00
192_D	196_Q	1.765	1.00
76_F	142_A	1.747	1.00
35_R	38_Q	1.745	1.00
330_T	334_E	1.741	1.00
338_K	342_L	1.730	1.00
232_A	270_T	1.670	1.00
274_E	278_A	1.667	1.00
285_H	288_L	1.616	1.00
195_V	198_V	1.609	1.00
188_I	191_L	1.600	1.00
244_D	247_G	1.595	1.00
231_V	234_P	1.594	1.00
317_V	325_T	1.593	1.00
32_F	70_T	1.588	1.00
247_G	251_V	1.582	1.00
34_H	216_D	1.576	1.00
160_Y	164_R	1.572	1.00
332_Y	336_V	1.572	1.00
157_D	160_Y	1.518	1.00
327_L	336_V	1.517	1.00
163_L	166_H	1.508	1.00
287_H	291_T	1.506	1.00
308_E	312_D	1.493	1.00
336_V	340_D	1.440	1.00
216_D	219_R	1.431	1.00
194_R	200_R	1.429	1.00
230_A	236_L	1.429	1.00
333_T	336_V	1.427	1.00
332_Y	339_L	1.427	1.00
71_A	206_F	1.422	1.00
125_F	129_A	1.419	1.00
228_E	271_V	1.417	1.00
231_V	235_V	1.409	1.00
146_V	178_V	1.406	1.00
319_D	323_D	1.404	1.00
125_F	128_V	1.399	1.00
317_V	320_V	1.389	1.00
156_G	160_Y	1.362	1.00
288_L	291_T	1.354	1.00
302_L	306_V	1.321	1.00
235_V	238_A	1.319	1.00
268_S	272_E	1.315	1.00
158_T	161_S	1.310	1.00
218_L	236_L	1.309	1.00
195_V	201_P	1.292	0.99
59_V	146_V	1.290	0.99
160_Y	163_L	1.290	0.99
271_V	276_V	1.287	0.99
333_T	337_N	1.249	0.99
160_Y	194_R	1.244	0.99
147_N	181_S	1.231	0.99
244_D	251_V	1.230	0.99
276_V	281_E	1.230	0.99
123_K	127_Q	1.223	0.99
318_Y	325_T	1.216	0.99
195_V	200_R	1.210	0.99
230_A	234_P	1.191	0.99
289_S	293_A	1.190	0.99
234_P	237_D	1.190	0.99
297_D	300_R	1.188	0.99
320_V	325_T	1.187	0.99
248_D	251_V	1.187	0.99
328_G	336_V	1.186	0.99
157_D	161_S	1.184	0.99
235_V	241_G	1.183	0.99
230_A	233_E	1.174	0.99
262_H	275_D	1.173	0.99
273_M	277_D	1.139	0.99
129_A	135_D	1.136	0.99
142_A	179_V	1.129	0.99
145_D	181_S	1.127	0.99
328_G	339_L	1.121	0.99
160_Y	166_H	1.119	0.99
194_R	199_F	1.115	0.98
73_Q	89_R	1.114	0.98
238_A	242_R	1.113	0.98
336_V	342_L	1.106	0.98
22_V	26_D	1.094	0.98
327_L	330_T	1.093	0.98
298_N	321_F	1.092	0.98
198_V	201_P	1.085	0.98
104_R	107_E	1.080	0.98
129_A	134_D	1.079	0.98
195_V	199_F	1.076	0.98
330_T	333_T	1.075	0.98
162_L	165_A	1.072	0.98
337_N	341_E	1.072	0.98
262_H	266_R	1.070	0.98
302_L	332_Y	1.066	0.98
296_S	306_V	1.065	0.98
158_T	163_L	1.065	0.98
275_D	281_E	1.056	0.98
257_R	261_L	1.049	0.98
279_V	283_A	1.043	0.98
158_T	164_R	1.042	0.98
233_E	237_D	1.031	0.97
196_Q	199_F	1.027	0.97
239_V	252_G	1.027	0.97
245_E	251_V	1.026	0.97
240_G	247_G	1.021	0.97
339_L	343_G	1.021	0.97
192_D	198_V	1.019	0.97
45_A	58_V	1.017	0.97
271_V	275_D	1.017	0.97
313_R	317_V	1.008	0.97
39_L	71_A	1.007	0.97
158_T	162_L	1.002	0.97
272_E	276_V	1.000	0.97
288_L	295_L	0.998	0.97
160_Y	165_A	0.995	0.97
294_A	300_R	0.993	0.97
215_T	236_L	0.992	0.97
275_D	278_A	0.989	0.97
91_N	160_Y	0.983	0.97
295_L	299_E	0.974	0.96
329_Y	339_L	0.973	0.96
235_V	239_V	0.968	0.96
158_T	165_A	0.968	0.96
211_R	241_G	0.966	0.96
327_L	332_Y	0.961	0.96
293_A	299_E	0.960	0.96
274_E	277_D	0.957	0.96
328_G	333_T	0.951	0.96
284_K	292_L	0.946	0.96
139_L	174_V	0.945	0.96
328_G	334_E	0.944	0.96
192_D	201_P	0.944	0.96
152_E	155_A	0.941	0.96
327_L	340_D	0.940	0.96
276_V	279_V	0.939	0.96
318_Y	326_D	0.937	0.96
327_L	331_R	0.933	0.95
297_D	301_A	0.930	0.95
161_S	164_R	0.929	0.95
271_V	279_V	0.917	0.95
62_G	67_G	0.917	0.95
193_G	196_Q	0.913	0.95
238_A	277_D	0.911	0.95
156_G	159_L	0.910	0.95
222_V	276_V	0.910	0.95
73_Q	170_P	0.906	0.95
192_D	200_R	0.905	0.95
58_V	204_A	0.905	0.95
330_T	335_I	0.899	0.94
196_Q	200_R	0.899	0.94
300_R	304_R	0.891	0.94
104_R	108_E	0.888	0.94
60_A	72_V	0.883	0.94
156_G	164_R	0.873	0.93
329_Y	335_I	0.868	0.93
149_L	255_V	0.863	0.93
53_S	253_I	0.863	0.93
322_N	325_T	0.862	0.93
36_E	213_E	0.858	0.93
231_V	238_A	0.853	0.93
263_A	275_D	0.853	0.93
194_R	201_P	0.853	0.93
164_R	198_V	0.852	0.93
329_Y	336_V	0.852	0.93
295_L	303_V	0.852	0.93
160_Y	197_S	0.850	0.93
243_T	251_V	0.839	0.92
87_T	142_A	0.838	0.92
305_T	324_R	0.837	0.92
157_D	162_L	0.836	0.92
36_E	216_D	0.834	0.92
234_P	239_V	0.833	0.92
218_L	239_V	0.833	0.92
319_D	322_N	0.830	0.92
104_R	161_S	0.828	0.92
58_V	177_V	0.826	0.91
340_D	345_I	0.822	0.91
288_L	299_E	0.820	0.91
255_V	280_Y	0.817	0.91
303_V	306_V	0.815	0.91
234_P	241_G	0.814	0.91
291_T	306_V	0.814	0.91
23_F	26_D	0.809	0.91
299_E	306_V	0.807	0.90
293_A	296_S	0.804	0.90
159_L	164_R	0.796	0.90
108_E	112_Y	0.795	0.90
37_S	40_Q	0.794	0.90
332_Y	342_L	0.794	0.90
331_R	335_I	0.794	0.90
134_D	171_G	0.793	0.90
280_Y	283_A	0.793	0.90
242_R	247_G	0.788	0.89
124_L	131_R	0.788	0.89
298_N	301_A	0.786	0.89
323_D	326_D	0.782	0.89
62_G	65_G	0.780	0.89
273_M	276_V	0.778	0.89
192_D	199_F	0.775	0.89
327_L	335_I	0.774	0.89
229_G	233_E	0.774	0.89
315_G	319_D	0.773	0.89
303_V	307_A	0.773	0.89
232_A	236_L	0.771	0.88
290_R	294_A	0.765	0.88
85_V	91_N	0.764	0.88
290_R	293_A	0.760	0.88
190_A	195_V	0.759	0.88
213_E	276_V	0.758	0.88
33_R	220_D	0.757	0.87
233_E	238_A	0.752	0.87
90_V	176_V	0.750	0.87
230_A	235_V	0.749	0.87
262_H	265_S	0.745	0.87
57_N	201_P	0.744	0.87
270_T	279_V	0.743	0.86
304_R	307_A	0.743	0.86
189_E	194_R	0.735	0.86
327_L	339_L	0.735	0.86
295_L	306_V	0.732	0.86
238_A	273_M	0.730	0.86
296_S	301_A	0.730	0.86
254_D	257_R	0.729	0.85
239_V	242_R	0.728	0.85
278_A	282_D	0.725	0.85
284_K	302_L	0.724	0.85
341_E	344_V	0.721	0.85
259_A	279_V	0.719	0.85
331_R	338_K	0.719	0.85
233_E	241_G	0.718	0.85
258_R	261_L	0.710	0.84
341_E	349_Y	0.709	0.84
299_E	303_V	0.709	0.84
45_A	146_V	0.709	0.84
279_V	282_D	0.705	0.83
327_L	333_T	0.703	0.83
228_E	256_L	0.702	0.83
231_V	236_L	0.702	0.83
286_V	289_S	0.701	0.83
46_L	75_L	0.701	0.83
259_A	271_V	0.698	0.83
149_L	160_Y	0.695	0.83
122_K	125_F	0.691	0.82
92_C	162_L	0.688	0.82
231_V	271_V	0.685	0.82
157_D	163_L	0.685	0.82
285_H	291_T	0.684	0.82
214_I	218_L	0.684	0.82
334_E	338_K	0.684	0.82
44_Y	265_S	0.680	0.81
260_G	263_A	0.679	0.81
335_I	338_K	0.679	0.81
297_D	304_R	0.678	0.81
160_Y	198_V	0.673	0.81
294_A	298_N	0.673	0.81
344_V	347_A	0.672	0.80
189_E	192_D	0.672	0.80
331_R	347_A	0.670	0.80
161_S	166_H	0.669	0.80
69_T	145_D	0.668	0.80
110_F	113_E	0.668	0.80
315_G	318_Y	0.664	0.80
303_V	321_F	0.664	0.80
62_G	68_K	0.662	0.79
231_V	239_V	0.660	0.79
246_A	251_V	0.659	0.79
196_Q	201_P	0.656	0.79
91_N	105_V	0.656	0.79
197_S	248_D	0.651	0.78
306_V	328_G	0.650	0.78
336_V	347_A	0.648	0.78
209_Y	221_R	0.647	0.78
314_A	318_Y	0.646	0.78
331_R	341_E	0.641	0.77
329_Y	337_N	0.641	0.77
295_L	344_V	0.640	0.77
163_L	168_T	0.640	0.77
262_H	278_A	0.639	0.77
156_G	161_S	0.639	0.77
330_T	339_L	0.638	0.77
270_T	323_D	0.638	0.77
291_T	337_N	0.637	0.77
328_G	343_G	0.636	0.77
22_V	25_I	0.635	0.77
332_Y	344_V	0.634	0.77
264_E	268_S	0.634	0.77
219_R	233_E	0.633	0.76
42_L	204_A	0.631	0.76
327_L	344_V	0.630	0.76
243_T	246_A	0.627	0.76
47_R	51_R	0.624	0.75
35_R	209_Y	0.623	0.75
63_P	253_I	0.622	0.75
160_Y	195_V	0.618	0.75
85_V	92_C	0.618	0.75
35_R	253_I	0.618	0.75
242_R	252_G	0.614	0.74
111_D	114_P	0.609	0.74
232_A	235_V	0.609	0.74
292_L	295_L	0.608	0.74
209_Y	217_I	0.608	0.74
245_E	255_V	0.607	0.73
334_E	342_L	0.607	0.73
305_T	312_D	0.606	0.73
162_L	203_E	0.605	0.73
291_T	295_L	0.603	0.73
193_G	197_S	0.601	0.73
24_E	28_V	0.601	0.73
234_P	238_A	0.600	0.73
237_D	240_G	0.597	0.72
64_P	181_S	0.596	0.72
197_S	201_P	0.596	0.72
39_L	74_K	0.595	0.72
23_F	29_P	0.593	0.72
334_E	337_N	0.593	0.72
234_P	242_R	0.587	0.71
272_E	279_V	0.585	0.71
284_K	306_V	0.585	0.71
262_H	279_V	0.584	0.71
59_V	180_S	0.581	0.70
270_T	278_A	0.580	0.70
144_D	217_I	0.579	0.70
293_A	300_R	0.579	0.70
149_L	263_A	0.576	0.69
272_E	281_E	0.576	0.69
46_L	177_V	0.575	0.69
158_T	166_H	0.574	0.69
298_N	335_I	0.573	0.69
337_N	344_V	0.573	0.69
212_A	215_T	0.571	0.69
302_L	305_T	0.570	0.69
327_L	337_N	0.570	0.69
219_R	223_E	0.570	0.69
256_L	271_V	0.570	0.69
177_V	293_A	0.568	0.68
318_Y	332_Y	0.567	0.68
221_R	253_I	0.566	0.68
89_R	106_F	0.564	0.68
181_S	247_G	0.563	0.68
272_E	278_A	0.562	0.68
106_F	110_F	0.562	0.68
65_G	145_D	0.562	0.68
66_T	70_T	0.562	0.68
105_V	128_V	0.560	0.67
318_Y	323_D	0.559	0.67
300_R	307_A	0.558	0.67
270_T	276_V	0.558	0.67
331_R	336_V	0.558	0.67
292_L	307_A	0.556	0.67
218_L	222_V	0.556	0.67
295_L	300_R	0.554	0.66
110_F	128_V	0.554	0.66
339_L	344_V	0.553	0.66
211_R	237_D	0.552	0.66
29_P	32_F	0.551	0.66
170_P	177_V	0.551	0.66
80_S	87_T	0.549	0.66
312_D	320_V	0.549	0.66
40_Q	43_Q	0.548	0.66
277_D	281_E	0.547	0.66
61_R	204_A	0.541	0.65
293_A	304_R	0.540	0.65
268_S	273_M	0.539	0.64
57_N	143_L	0.539	0.64
21_H	24_E	0.537	0.64
163_L	198_V	0.536	0.64
92_C	105_V	0.535	0.64
43_Q	78_E	0.532	0.63
39_L	174_V	0.532	0.63
35_R	75_L	0.530	0.63
317_V	339_L	0.530	0.63
61_R	203_E	0.529	0.63
124_L	127_Q	0.529	0.63
204_A	282_D	0.529	0.63
90_V	105_V	0.528	0.63
335_I	342_L	0.527	0.63
288_L	292_L	0.523	0.62
217_I	221_R	0.523	0.62
333_T	339_L	0.522	0.62
77_G	84_G	0.520	0.62
162_L	166_H	0.517	0.61
238_A	308_E	0.516	0.61
263_A	271_V	0.515	0.61
287_H	290_R	0.515	0.61
170_P	262_H	0.514	0.61
139_L	173_K	0.513	0.61
209_Y	248_D	0.512	0.60
295_L	302_L	0.512	0.60
41_T	44_Y	0.511	0.60
127_Q	131_R	0.509	0.60
122_K	126_G	0.509	0.60
315_G	325_T	0.508	0.60
177_V	255_V	0.507	0.60
229_G	232_A	0.505	0.59
128_V	131_R	0.504	0.59
110_F	127_Q	0.504	0.59
42_L	75_L	0.504	0.59
206_F	209_Y	0.503	0.59
218_L	228_E	0.503	0.59
296_S	302_L	0.502	0.59
65_G	69_T	0.502	0.59
248_D	254_D	0.501	0.59
55_P	79_L	0.500	0.59

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
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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	0.9439	100	0.362	Contact Map
4xgcA	1	0.7861	100	0.364	Contact Map
2v1uA	1	0.9519	100	0.372	Contact Map
1w5sA	1	0.9278	100	0.402	Contact Map
2qbyB	1	0.9171	100	0.41	Contact Map
1fnnA	1	0.9225	100	0.441	Contact Map
4xgcD	1	0.9278	100	0.481	Contact Map
3te6A	1	0.7059	100	0.568	Contact Map
4xgcE	1	0.861	100	0.609	Contact Map
4ko8A	3	0.6952	100	0.654	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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