DEOR - BACSU - GREMLIN Contacts

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DEOR - Deoxyribonucleoside regulator

UniProt:	P39140	Sequences: MDREKQQLSIEAARLYYQSDYSQQQIAEQLNISRPTVSRLLQYAKEKGYVQIRVMDPFEDLDALGSILEEKYGLLEAHVVFSPTPDYAGITHDLSRYGAEYMHETVKDGDIVGVSWGTTMYQIAQNMQPKQVKGVEVVQLKGGISHSRVNTYSAETIQLFAEAFQTMPRYLPLPVVFDNADVKRMVEKDRHIERIIEMGKQANIALFTVGTVRDEALLFRLGYFNEEEKALLKKQAVGDICSRFFDAKGNICSSAINDRTIGVELQDLRLKERSILVAGGSRKVSSIHGALTGKYANVLIIDQHTARALVNDL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	313 (302)
Sequences:	2218 (1712)
Seq/√Len:	98.5

ECOLI - YJHU LSRR
BACSU - DEOR CGGR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
246_D	250_N	7.096	1.00
200_K	267_D	4.111	1.00
113_G	202_A	3.471	1.00
94_L	279_G	3.231	1.00
287_I	305_T	2.916	1.00
110_D	203_N	2.914	1.00
247_A	285_S	2.907	1.00
72_Y	288_H	2.899	1.00
51_Q	55_M	2.834	1.00
72_Y	291_L	2.826	1.00
209_V	276_L	2.724	1.00
245_F	289_G	2.722	1.00
101_Y	300_I	2.648	1.00
288_H	292_T	2.641	1.00
276_L	296_A	2.517	1.00
98_G	277_V	2.462	1.00
21_Y	29_Q	2.441	1.00
301_I	305_T	2.433	1.00
183_K	187_E	2.420	1.00
137_V	164_F	2.378	1.00
193_E	197_E	2.261	1.00
109_G	134_G	2.166	1.00
80_V	97_Y	2.163	1.00
278_A	287_I	2.141	1.00
238_G	289_G	2.136	1.00
208_T	276_L	2.133	1.00
111_I	198_M	2.129	1.00
308_A	311_N	2.117	1.00
67_I	70_E	2.110	1.00
203_N	272_E	2.103	1.00
284_V	309_L	2.016	1.00
284_V	308_A	2.006	1.00
273_R	298_V	2.001	1.00
180_A	184_R	1.997	1.00
42_Q	46_E	1.977	1.00
238_G	245_F	1.975	1.00
43_Y	47_K	1.941	1.00
139_Q	154_A	1.935	1.00
78_H	97_Y	1.897	1.00
98_G	123_I	1.879	1.00
124_A	156_T	1.863	1.00
284_V	305_T	1.860	1.00
204_I	275_I	1.813	1.00
264_E	267_D	1.802	1.00
274_S	297_N	1.793	1.00
177_F	182_V	1.787	1.00
91_T	118_T	1.782	1.00
123_I	277_V	1.781	1.00
136_E	169_R	1.753	1.00
66_S	69_E	1.745	1.00
288_H	309_L	1.731	1.00
111_I	202_A	1.729	1.00
81_F	303_Q	1.722	1.00
68_L	77_A	1.707	1.00
199_G	202_A	1.704	1.00
76_E	298_V	1.694	1.00
140_L	205_A	1.675	1.00
207_F	274_S	1.648	1.00
12_A	32_I	1.635	1.00
127_M	160_F	1.629	1.00
111_I	201_Q	1.615	1.00
69_E	77_A	1.611	1.00
202_A	271_K	1.599	1.00
180_A	258_D	1.598	1.00
245_F	286_S	1.596	1.00
207_F	276_L	1.592	1.00
75_L	273_R	1.588	1.00
178_D	190_R	1.563	1.00
12_A	26_I	1.558	1.00
229_K	233_K	1.557	1.00
101_Y	298_V	1.549	1.00
106_V	112_V	1.522	1.00
247_A	289_G	1.517	1.00
209_V	286_S	1.489	1.00
280_G	302_D	1.489	1.00
9_S	40_L	1.471	1.00
248_K	292_T	1.454	1.00
161_A	168_P	1.438	1.00
17_Y	52_I	1.433	1.00
92_H	126_N	1.432	1.00
69_E	76_E	1.431	1.00
115_S	241_C	1.430	1.00
228_E	259_R	1.426	1.00
225_N	228_E	1.406	1.00
112_V	204_I	1.395	0.99
254_S	257_N	1.392	0.99
101_Y	105_T	1.379	0.99
281_S	308_A	1.351	0.99
35_P	38_S	1.349	0.99
95_S	122_Q	1.347	0.99
136_E	198_M	1.336	0.99
9_S	49_Y	1.307	0.99
125_Q	159_L	1.299	0.99
113_G	140_L	1.291	0.99
303_Q	307_R	1.290	0.99
196_I	199_G	1.287	0.99
287_I	301_I	1.275	0.99
12_A	30_L	1.266	0.99
99_A	127_M	1.265	0.99
112_V	137_V	1.256	0.99
124_A	160_F	1.248	0.99
278_A	301_I	1.236	0.99
178_D	189_D	1.236	0.99
230_A	234_K	1.232	0.99
246_D	252_C	1.225	0.99
205_A	271_K	1.214	0.99
14_R	18_Q	1.194	0.98
159_L	162_E	1.190	0.98
102_M	204_I	1.187	0.98
20_D	45_K	1.183	0.98
177_F	186_V	1.179	0.98
169_R	198_M	1.177	0.98
197_E	201_Q	1.172	0.98
111_I	203_N	1.163	0.98
71_K	309_L	1.160	0.98
122_Q	125_Q	1.157	0.98
12_A	40_L	1.150	0.98
113_G	116_W	1.148	0.98
21_Y	25_Q	1.147	0.98
63_A	67_I	1.131	0.98
27_A	37_V	1.131	0.98
66_S	70_E	1.125	0.98
230_A	233_K	1.111	0.97
8_L	40_L	1.105	0.97
192_I	196_I	1.103	0.97
123_I	206_L	1.100	0.97
9_S	43_Y	1.096	0.97
68_L	79_V	1.093	0.97
102_M	206_L	1.090	0.97
143_G	239_D	1.090	0.97
229_K	232_L	1.087	0.97
67_I	71_K	1.083	0.97
105_T	273_R	1.070	0.97
15_L	29_Q	1.059	0.97
71_K	310_V	1.059	0.97
110_D	204_I	1.058	0.97
186_V	261_I	1.058	0.97
108_D	133_K	1.053	0.96
37_V	41_L	1.052	0.96
243_R	262_G	1.040	0.96
10_I	49_Y	1.037	0.96
76_E	104_E	1.033	0.96
68_L	310_V	1.030	0.96
16_Y	34_R	1.020	0.96
208_T	278_A	1.017	0.96
68_L	309_L	1.003	0.95
291_L	296_A	0.995	0.95
124_A	159_L	0.994	0.95
139_Q	152_Y	0.994	0.95
245_F	290_A	0.990	0.95
184_R	188_K	0.985	0.95
22_S	34_R	0.985	0.95
307_R	311_N	0.976	0.95
194_R	197_E	0.970	0.94
247_A	292_T	0.966	0.94
182_V	189_D	0.959	0.94
265_L	295_Y	0.958	0.94
136_E	167_M	0.954	0.94
243_R	257_N	0.951	0.94
247_A	288_H	0.950	0.94
75_L	297_N	0.946	0.94
143_G	152_Y	0.944	0.94
209_V	287_I	0.943	0.94
78_H	101_Y	0.942	0.93
115_S	243_R	0.940	0.93
239_D	242_S	0.940	0.93
197_E	200_K	0.933	0.93
205_A	268_L	0.933	0.93
72_Y	77_A	0.926	0.93
207_F	296_A	0.921	0.93
22_S	25_Q	0.918	0.93
9_S	12_A	0.916	0.93
116_W	243_R	0.913	0.92
302_D	305_T	0.907	0.92
116_W	239_D	0.906	0.92
206_L	275_I	0.905	0.92
157_I	168_P	0.903	0.92
115_S	139_Q	0.890	0.91
107_K	110_D	0.887	0.91
253_S	258_D	0.883	0.91
155_E	158_Q	0.882	0.91
61_L	65_G	0.881	0.91
111_I	138_V	0.878	0.91
253_S	257_N	0.877	0.91
197_E	230_A	0.875	0.91
175_V	242_S	0.866	0.90
290_A	293_G	0.859	0.90
112_V	160_F	0.856	0.90
15_L	26_I	0.854	0.90
94_L	98_G	0.851	0.89
67_I	307_R	0.847	0.89
173_L	261_I	0.846	0.89
12_A	15_L	0.841	0.89
263_V	271_K	0.839	0.89
188_K	193_E	0.830	0.88
294_K	297_N	0.826	0.88
74_L	299_L	0.825	0.88
208_T	296_A	0.825	0.88
82_S	304_H	0.819	0.88
236_A	252_C	0.819	0.88
154_A	172_P	0.819	0.88
95_S	279_G	0.813	0.87
208_T	287_I	0.811	0.87
96_R	126_N	0.811	0.87
8_L	32_I	0.810	0.87
41_L	45_K	0.806	0.87
284_V	288_H	0.804	0.87
64_L	79_V	0.798	0.86
101_Y	275_I	0.797	0.86
145_S	152_Y	0.795	0.86
137_V	166_T	0.793	0.86
13_A	41_L	0.791	0.86
114_V	160_F	0.789	0.86
102_M	123_I	0.786	0.85
15_L	23_Q	0.785	0.85
12_A	37_V	0.785	0.85
177_F	261_I	0.781	0.85
218_L	221_L	0.779	0.85
176_V	260_T	0.776	0.85
8_L	11_E	0.775	0.85
72_Y	309_L	0.775	0.85
108_D	134_G	0.772	0.84
231_L	236_A	0.766	0.84
86_D	89_G	0.764	0.84
23_Q	35_P	0.764	0.84
280_G	283_K	0.761	0.83
276_L	287_I	0.761	0.83
23_Q	38_S	0.760	0.83
224_F	228_E	0.757	0.83
14_R	38_S	0.754	0.83
24_Q	28_E	0.750	0.83
289_G	292_T	0.750	0.83
175_V	212_V	0.750	0.83
176_V	259_R	0.749	0.83
122_Q	208_T	0.749	0.83
26_I	54_V	0.747	0.82
116_W	139_Q	0.746	0.82
26_I	39_R	0.743	0.82
157_I	161_A	0.741	0.82
187_E	196_I	0.741	0.82
101_Y	104_E	0.738	0.82
266_Q	269_R	0.738	0.82
114_V	156_T	0.737	0.82
11_E	14_R	0.736	0.81
185_M	189_D	0.736	0.81
138_V	195_I	0.734	0.81
61_L	79_V	0.731	0.81
160_F	286_S	0.731	0.81
94_L	277_V	0.717	0.80
289_G	293_G	0.712	0.79
106_V	164_F	0.712	0.79
17_Y	41_L	0.710	0.79
103_H	130_K	0.709	0.79
230_A	255_A	0.707	0.79
105_T	204_I	0.705	0.79
128_Q	163_A	0.704	0.78
64_L	307_R	0.701	0.78
279_G	305_T	0.700	0.78
210_G	239_D	0.698	0.78
94_L	301_I	0.695	0.78
159_L	163_A	0.692	0.77
181_D	184_R	0.689	0.77
278_A	283_K	0.688	0.77
140_L	241_C	0.687	0.77
32_I	37_V	0.684	0.76
107_K	203_N	0.683	0.76
208_T	260_T	0.681	0.76
105_T	297_N	0.681	0.76
243_R	260_T	0.677	0.76
117_G	303_Q	0.675	0.76
279_G	287_I	0.672	0.75
13_A	44_A	0.670	0.75
171_L	261_I	0.669	0.75
152_Y	242_S	0.669	0.75
106_V	135_V	0.669	0.75
74_L	297_N	0.668	0.75
263_V	267_D	0.667	0.75
98_G	208_T	0.666	0.75
139_Q	189_D	0.666	0.75
77_A	291_L	0.665	0.74
268_L	271_K	0.664	0.74
275_I	297_N	0.663	0.74
139_Q	172_P	0.662	0.74
103_H	164_F	0.660	0.74
197_E	311_N	0.660	0.74
179_N	182_V	0.658	0.74
11_E	69_E	0.658	0.74
176_V	180_A	0.657	0.74
80_V	90_I	0.656	0.73
255_A	284_V	0.656	0.73
177_F	192_I	0.655	0.73
243_R	264_E	0.654	0.73
61_L	81_F	0.654	0.73
35_P	141_K	0.652	0.73
38_S	239_D	0.650	0.73
240_I	290_A	0.650	0.73
227_E	230_A	0.650	0.73
257_N	260_T	0.648	0.73
98_G	300_I	0.648	0.73
194_R	198_M	0.648	0.73
63_A	272_E	0.645	0.72
68_L	72_Y	0.645	0.72
37_V	268_L	0.645	0.72
216_A	219_F	0.640	0.72
80_V	94_L	0.638	0.71
158_Q	172_P	0.635	0.71
174_P	177_F	0.633	0.71
65_G	77_A	0.632	0.71
50_V	54_V	0.629	0.70
189_D	242_S	0.628	0.70
34_R	45_K	0.625	0.70
231_L	244_F	0.624	0.70
24_Q	34_R	0.624	0.70
131_Q	165_Q	0.624	0.70
141_K	217_L	0.624	0.70
256_I	277_V	0.623	0.70
287_I	299_L	0.622	0.69
26_I	98_G	0.622	0.69
71_K	292_T	0.621	0.69
35_P	175_V	0.620	0.69
39_R	259_R	0.620	0.69
40_L	168_P	0.618	0.69
15_L	21_Y	0.617	0.69
197_E	285_S	0.614	0.68
98_G	206_L	0.613	0.68
115_S	169_R	0.611	0.68
12_A	36_T	0.611	0.68
141_K	175_V	0.609	0.68
92_H	125_Q	0.609	0.68
112_V	248_K	0.607	0.68
279_G	302_D	0.605	0.67
105_T	298_V	0.604	0.67
39_R	172_P	0.604	0.67
85_P	304_H	0.602	0.67
113_G	120_M	0.601	0.67
41_L	239_D	0.599	0.67
16_Y	23_Q	0.598	0.66
251_I	265_L	0.597	0.66
30_L	97_Y	0.596	0.66
40_L	44_A	0.596	0.66
8_L	65_G	0.596	0.66
237_V	252_C	0.595	0.66
153_S	217_L	0.595	0.66
82_S	303_Q	0.595	0.66
77_A	80_V	0.594	0.66
154_A	208_T	0.592	0.66
237_V	289_G	0.591	0.66
114_V	153_S	0.589	0.65
92_H	122_Q	0.588	0.65
16_Y	38_S	0.587	0.65
34_R	175_V	0.587	0.65
9_S	44_A	0.586	0.65
137_V	157_I	0.585	0.65
218_L	289_G	0.581	0.64
100_E	103_H	0.581	0.64
230_A	254_S	0.581	0.64
82_S	161_A	0.580	0.64
14_R	56_D	0.580	0.64
80_V	111_I	0.579	0.64
120_M	156_T	0.578	0.64
77_A	92_H	0.578	0.64
35_P	56_D	0.577	0.64
121_Y	208_T	0.576	0.64
66_S	304_H	0.574	0.63
48_G	294_K	0.574	0.63
200_K	270_L	0.572	0.63
219_F	222_G	0.570	0.63
143_G	173_L	0.570	0.63
66_S	281_S	0.570	0.63
73_G	294_K	0.569	0.63
18_Q	115_S	0.568	0.62
74_L	298_V	0.566	0.62
196_I	261_I	0.564	0.62
116_W	140_L	0.564	0.62
137_V	160_F	0.563	0.62
106_V	132_V	0.563	0.62
257_N	264_E	0.562	0.62
286_S	289_G	0.561	0.62
243_R	265_L	0.561	0.62
14_R	139_Q	0.560	0.61
76_E	101_Y	0.558	0.61
103_H	128_Q	0.557	0.61
281_S	304_H	0.555	0.61
182_V	186_V	0.555	0.61
61_L	303_Q	0.554	0.61
121_Y	159_L	0.553	0.60
140_L	199_G	0.553	0.60
197_E	227_E	0.552	0.60
209_V	296_A	0.552	0.60
82_S	302_D	0.550	0.60
22_S	35_P	0.550	0.60
270_L	311_N	0.550	0.60
226_E	229_K	0.548	0.60
153_S	262_G	0.547	0.60
296_A	299_L	0.546	0.59
212_V	286_S	0.546	0.59
192_I	195_I	0.546	0.59
256_I	260_T	0.545	0.59
114_V	220_R	0.544	0.59
290_A	294_K	0.543	0.59
101_Y	272_E	0.542	0.59
154_A	217_L	0.542	0.59
247_A	250_N	0.541	0.59
177_F	268_L	0.540	0.59
11_E	303_Q	0.540	0.59
124_A	163_A	0.539	0.58
281_S	305_T	0.537	0.58
95_S	126_N	0.537	0.58
182_V	185_M	0.537	0.58
199_G	263_V	0.536	0.58
78_H	298_V	0.536	0.58
137_V	243_R	0.535	0.58
112_V	149_V	0.532	0.58
71_K	250_N	0.532	0.58
27_A	32_I	0.532	0.58
38_S	56_D	0.531	0.57
147_S	150_N	0.531	0.57
129_P	165_Q	0.528	0.57
236_A	244_F	0.527	0.57
117_G	260_T	0.526	0.57
203_N	271_K	0.526	0.57
27_A	129_P	0.526	0.57
283_K	302_D	0.525	0.57
175_V	239_D	0.525	0.57
242_S	262_G	0.525	0.57
86_D	233_K	0.523	0.56
131_Q	181_D	0.522	0.56
106_V	186_V	0.522	0.56
33_S	174_P	0.521	0.56
70_E	250_N	0.521	0.56
25_Q	28_E	0.521	0.56
41_L	50_V	0.521	0.56
120_M	168_P	0.520	0.56
67_I	73_G	0.520	0.56
138_V	299_L	0.515	0.55
137_V	161_A	0.513	0.55
34_R	52_I	0.513	0.55
140_L	263_V	0.512	0.55
119_T	280_G	0.511	0.55
80_V	256_I	0.511	0.55
139_Q	213_R	0.509	0.54
17_Y	134_G	0.508	0.54
161_A	166_T	0.508	0.54
14_R	81_F	0.507	0.54
174_P	242_S	0.507	0.54
102_M	112_V	0.507	0.54
54_V	215_E	0.505	0.54
179_N	262_G	0.505	0.54
34_R	116_W	0.505	0.54
90_I	302_D	0.503	0.53
298_V	301_I	0.502	0.53
199_G	242_S	0.501	0.53
143_G	154_A	0.500	0.53

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
2w48A	3	0.9872	100	0.37	Contact Map
4l5jA	4	0.9649	100	0.381	Contact Map
4l4yA	2	0.7572	100	0.449	Contact Map
3efbA	2	0.7923	100	0.453	Contact Map
2o0mA	1	0.7732	100	0.465	Contact Map
4oqpA	2	0.8115	100	0.467	Contact Map
2r5fA	1	0.6837	100	0.469	Contact Map
4r9nA	1	0.7859	100	0.472	Contact Map
3kv1A	2	0.7923	100	0.473	Contact Map
2gnpA	1	0.8243	100	0.473	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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