Q9HMU4 - HALSA - GREMLIN Contacts

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Q9HMU4 - Ribonucleoside reductase small chain

UniProt:	Q9HMU4	Sequences: MPVLDSDAEHDPNKILPIDYDWAREYYQQGVANNWTPEEVAMQGDISQWQGNELTDAERQLVEWNLGFFSTAESLTANNIVLAIYEYVTAPECRQYLLRQAYEEAVHTDTFIYCCDSLGFDPEHMYGMYDRIPSIAEKDEFVVGLTRAVDDQAFTIDTDDDLRDFLRDLVGFYVIMEGIFFYAGFAMMLALKRRGKMVGVGEQFEYIMRDESLHLNFGVDLINQIRDEHPDVWTADFEAEVNSLMRDAVDLEQLYARDACPDDLLGMSSEQFADYVEYVADRRFQQLRMDPVYGTDNPFPWMTEQVDLNTETNFFERNVSEYQQGGSLDWD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	331 (301)
Sequences:	2176 (770)
Seq/√Len:	44.4

ECOLI - RIR2 RIR4
BACSU - YOSP RIR2
HALSA - Q9HMU4
SULSO - Q97VV7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
137_E	254_L	5.899	1.00
257_R	273_A	4.965	1.00
253_Q	277_E	4.302	1.00
281_D	294_G	4.173	1.00
40_V	110_T	4.131	1.00
56_D	59_R	4.084	1.00
167_R	240_E	3.477	1.00
136_A	140_E	3.340	1.00
60_Q	64_W	3.331	1.00
238_E	290_D	3.301	1.00
246_R	292_V	3.202	1.00
55_T	58_E	3.022	1.00
249_V	293_Y	2.955	1.00
175_I	245_M	2.929	1.00
242_N	292_V	2.830	1.00
170_V	241_V	2.630	1.00
242_N	284_F	2.616	1.00
253_Q	273_A	2.470	1.00
249_V	280_A	2.407	1.00
169_L	221_L	2.356	1.00
243_S	247_D	2.331	1.00
48_Q	53_E	2.306	1.00
242_N	290_D	2.298	1.00
242_N	289_M	2.267	1.00
177_E	211_E	2.258	1.00
239_A	243_S	2.159	1.00
104_E	177_E	2.125	1.00
222_I	229_H	2.092	0.99
170_V	287_L	2.076	0.99
246_R	293_Y	2.043	0.99
133_P	137_E	2.039	0.99
49_W	59_R	2.023	0.99
211_E	214_H	2.019	0.99
31_V	36_T	2.000	0.99
235_A	239_A	1.942	0.99
63_E	119_G	1.920	0.99
241_V	289_M	1.893	0.99
250_D	254_L	1.881	0.99
73_E	111_F	1.867	0.99
191_L	197_M	1.851	0.99
42_M	113_Y	1.828	0.99
15_I	95_Q	1.818	0.99
242_N	246_R	1.773	0.98
28_Q	38_E	1.771	0.98
76_T	146_T	1.762	0.98
110_T	203_Q	1.745	0.98
30_G	103_E	1.731	0.98
206_Y	209_R	1.713	0.98
98_L	105_A	1.710	0.98
104_E	211_E	1.700	0.98
46_I	50_Q	1.670	0.97
37_P	110_T	1.657	0.97
98_L	101_A	1.647	0.97
222_I	289_M	1.610	0.97
277_E	295_T	1.602	0.97
140_E	144_G	1.578	0.96
22_W	224_Q	1.570	0.96
96_Y	217_F	1.558	0.96
238_E	242_N	1.548	0.96
49_W	63_E	1.527	0.96
144_G	247_D	1.516	0.95
270_E	274_D	1.492	0.95
20_Y	90_A	1.469	0.95
271_Q	274_D	1.469	0.95
77_A	105_A	1.469	0.95
166_L	222_I	1.458	0.94
99_R	103_E	1.456	0.94
58_E	196_K	1.454	0.94
285_Q	291_P	1.437	0.94
59_R	63_E	1.435	0.94
181_F	207_I	1.430	0.94
31_V	37_P	1.416	0.93
257_R	269_S	1.416	0.93
246_R	250_D	1.367	0.92
273_A	277_E	1.365	0.92
163_R	240_E	1.362	0.92
138_K	252_E	1.356	0.92
30_G	100_Q	1.351	0.92
107_H	214_H	1.343	0.91
181_F	185_F	1.338	0.91
114_C	200_V	1.312	0.90
161_D	164_D	1.302	0.90
181_F	211_E	1.296	0.90
46_I	117_S	1.296	0.90
69_F	76_T	1.291	0.90
179_I	245_M	1.285	0.89
312_T	317_R	1.261	0.89
99_R	102_Y	1.261	0.89
137_E	247_D	1.258	0.88
313_N	316_E	1.256	0.88
26_Y	94_R	1.256	0.88
28_Q	36_T	1.250	0.88
186_A	301_W	1.243	0.88
140_E	290_D	1.238	0.88
202_E	320_S	1.238	0.88
192_K	201_G	1.207	0.86
316_E	319_V	1.201	0.86
37_P	40_V	1.200	0.86
240_E	243_S	1.195	0.86
235_A	238_E	1.194	0.86
226_R	238_E	1.193	0.86
61_L	259_A	1.193	0.86
54_L	197_M	1.188	0.85
193_R	301_W	1.166	0.84
263_D	270_E	1.162	0.84
186_A	256_A	1.160	0.84
28_Q	109_D	1.159	0.84
318_N	324_Q	1.145	0.83
37_P	106_V	1.143	0.83
238_E	289_M	1.118	0.82
104_E	181_F	1.110	0.81
62_V	200_V	1.108	0.81
275_Y	302_M	1.107	0.81
56_D	270_E	1.104	0.81
68_F	255_Y	1.089	0.80
37_P	113_Y	1.088	0.80
164_D	167_R	1.086	0.80
22_W	25_E	1.086	0.80
44_G	48_Q	1.085	0.80
57_A	263_D	1.083	0.80
50_Q	120_F	1.081	0.79
40_V	206_Y	1.077	0.79
226_R	233_W	1.073	0.79
127_G	131_R	1.070	0.79
253_Q	257_R	1.062	0.78
59_R	123_E	1.061	0.78
299_F	302_M	1.055	0.78
138_K	255_Y	1.050	0.77
12_P	17_P	1.048	0.77
188_M	204_F	1.023	0.75
189_L	208_M	1.023	0.75
95_Q	105_A	0.995	0.73
172_F	218_G	0.994	0.73
249_V	277_E	0.991	0.73
47_S	50_Q	0.990	0.73
21_D	25_E	0.988	0.73
107_H	210_D	0.987	0.73
290_D	295_T	0.985	0.73
223_N	226_R	0.981	0.72
215_L	283_R	0.976	0.72
31_V	106_V	0.972	0.72
40_V	209_R	0.968	0.71
185_F	322_Y	0.958	0.71
172_F	215_L	0.954	0.70
94_R	98_L	0.952	0.70
83_A	86_E	0.940	0.69
81_V	85_Y	0.931	0.68
250_D	253_Q	0.931	0.68
185_F	211_E	0.928	0.68
170_V	245_M	0.928	0.68
281_D	291_P	0.927	0.68
278_Y	282_R	0.926	0.68
160_D	163_R	0.921	0.68
23_A	224_Q	0.919	0.67
24_R	28_Q	0.919	0.67
73_E	200_V	0.918	0.67
254_L	257_R	0.917	0.67
50_Q	243_S	0.915	0.67
138_K	313_N	0.913	0.67
179_I	183_A	0.909	0.66
98_L	240_E	0.907	0.66
215_L	282_R	0.905	0.66
177_E	185_F	0.902	0.66
88_V	165_F	0.901	0.66
22_W	220_D	0.901	0.66
243_S	250_D	0.899	0.66
184_G	207_I	0.898	0.66
67_G	125_M	0.897	0.65
310_T	317_R	0.896	0.65
240_E	244_L	0.893	0.65
95_Q	98_L	0.893	0.65
219_V	286_Q	0.883	0.64
113_Y	116_D	0.882	0.64
279_V	283_R	0.880	0.64
87_Y	168_D	0.878	0.64
238_E	270_E	0.873	0.63
69_F	184_G	0.870	0.63
34_N	99_R	0.868	0.63
140_E	295_T	0.867	0.63
284_F	292_V	0.866	0.63
173_Y	218_G	0.866	0.63
274_D	295_T	0.863	0.62
102_Y	105_A	0.861	0.62
112_I	116_D	0.854	0.62
298_P	316_E	0.854	0.62
23_A	220_D	0.853	0.62
183_A	276_V	0.852	0.61
185_F	214_H	0.848	0.61
41_A	44_G	0.848	0.61
73_E	214_H	0.846	0.61
178_G	283_R	0.845	0.61
12_P	16_L	0.844	0.61
208_M	306_V	0.843	0.61
163_R	236_D	0.842	0.60
107_H	322_Y	0.842	0.60
270_E	273_A	0.842	0.60
56_D	246_R	0.841	0.60
28_Q	32_A	0.841	0.60
48_Q	191_L	0.839	0.60
277_E	293_Y	0.835	0.60
42_M	203_Q	0.834	0.60
310_T	321_E	0.831	0.59
238_E	243_S	0.829	0.59
99_R	105_A	0.827	0.59
163_R	234_T	0.825	0.59
27_Y	109_D	0.821	0.59
26_Y	216_N	0.816	0.58
242_N	291_P	0.814	0.58
142_V	176_M	0.812	0.58
291_P	294_G	0.812	0.58
261_P	265_L	0.807	0.57
42_M	199_G	0.807	0.57
177_E	214_H	0.806	0.57
177_E	181_F	0.806	0.57
202_E	206_Y	0.801	0.57
205_E	310_T	0.801	0.57
24_R	109_D	0.796	0.56
55_T	273_A	0.796	0.56
140_E	292_V	0.791	0.56
224_Q	228_E	0.790	0.56
290_D	294_G	0.789	0.56
256_A	276_V	0.788	0.55
44_G	47_S	0.778	0.54
165_F	169_L	0.776	0.54
36_T	106_V	0.770	0.54
140_E	293_Y	0.770	0.54
214_H	322_Y	0.770	0.54
249_V	253_Q	0.768	0.54
220_D	224_Q	0.764	0.53
312_T	319_V	0.761	0.53
30_G	33_N	0.760	0.53
166_L	225_I	0.749	0.52
102_Y	106_V	0.747	0.51
73_E	210_D	0.742	0.51
43_Q	46_I	0.742	0.51
277_E	281_D	0.741	0.51
93_C	221_L	0.737	0.51
273_A	276_V	0.736	0.50
53_E	290_D	0.736	0.50
30_G	217_F	0.736	0.50
146_T	182_Y	0.735	0.50
195_G	320_S	0.734	0.50
53_E	196_K	0.728	0.50
314_F	319_V	0.725	0.49
100_Q	181_F	0.725	0.49
19_D	91_P	0.724	0.49
24_R	27_Y	0.723	0.49
22_W	37_P	0.717	0.49
54_L	59_R	0.716	0.48
215_L	278_Y	0.709	0.48
163_R	237_F	0.708	0.48
73_E	218_G	0.708	0.48
126_Y	135_I	0.707	0.48
268_S	271_Q	0.706	0.48
63_E	123_E	0.704	0.47
67_G	212_S	0.703	0.47
227_D	289_M	0.703	0.47
23_A	93_C	0.702	0.47
210_D	214_H	0.701	0.47
56_D	241_V	0.696	0.47
82_L	85_Y	0.696	0.47
61_L	187_M	0.695	0.46
14_K	17_P	0.692	0.46
20_Y	224_Q	0.690	0.46
192_K	205_E	0.689	0.46
81_V	86_E	0.686	0.46
237_F	289_M	0.684	0.45
133_P	242_N	0.683	0.45
239_A	242_N	0.680	0.45
114_C	182_Y	0.680	0.45
107_H	185_F	0.680	0.45
107_H	211_E	0.677	0.45
217_F	221_L	0.676	0.45
41_A	199_G	0.673	0.44
193_R	202_E	0.672	0.44
50_Q	57_A	0.672	0.44
232_V	235_A	0.669	0.44
69_F	313_N	0.666	0.44
42_M	117_S	0.666	0.44
197_M	203_Q	0.666	0.44
120_F	123_E	0.665	0.44
141_F	145_L	0.665	0.44
179_I	280_A	0.665	0.44
203_Q	308_L	0.664	0.44
39_E	318_N	0.663	0.43
122_P	131_R	0.662	0.43
137_E	141_F	0.661	0.43
62_V	69_F	0.661	0.43
281_D	284_F	0.660	0.43
138_K	251_L	0.657	0.43
202_E	308_L	0.657	0.43
218_G	276_V	0.657	0.43
34_N	72_A	0.656	0.43
160_D	164_D	0.655	0.43
56_D	300_P	0.655	0.43
140_E	243_S	0.655	0.43
77_A	101_A	0.655	0.43
253_Q	295_T	0.649	0.42
230_P	233_W	0.649	0.42
30_G	96_Y	0.649	0.42
81_V	186_A	0.648	0.42
239_A	294_G	0.647	0.42
35_W	45_D	0.645	0.42
175_I	248_A	0.645	0.42
63_E	77_A	0.641	0.41
175_I	179_I	0.640	0.41
92_E	303_T	0.640	0.41
26_Y	29_Q	0.639	0.41
230_P	234_T	0.637	0.41
292_V	295_T	0.636	0.41
229_H	233_W	0.633	0.41
222_I	287_L	0.633	0.41
256_A	301_W	0.631	0.40
69_F	172_F	0.628	0.40
176_M	188_M	0.627	0.40
106_V	259_A	0.625	0.40
75_L	138_K	0.625	0.40
175_I	244_L	0.624	0.40
104_E	111_F	0.623	0.40
88_V	169_L	0.622	0.40
71_T	206_Y	0.621	0.39
263_D	268_S	0.621	0.39
47_S	254_L	0.620	0.39
171_G	244_L	0.620	0.39
20_Y	23_A	0.617	0.39
63_E	124_H	0.617	0.39
56_D	133_P	0.617	0.39
310_T	320_S	0.615	0.39
211_E	322_Y	0.614	0.39
234_T	237_F	0.613	0.39
169_L	278_Y	0.610	0.38
298_P	303_T	0.609	0.38
104_E	214_H	0.608	0.38
230_P	236_D	0.607	0.38
207_I	211_E	0.606	0.38
80_I	100_Q	0.606	0.38
245_M	280_A	0.606	0.38
212_S	216_N	0.605	0.38
76_T	176_M	0.603	0.38
111_F	185_F	0.602	0.38
30_G	213_L	0.601	0.38
256_A	273_A	0.601	0.38
70_S	115_C	0.600	0.38
30_G	99_R	0.599	0.37
178_G	215_L	0.597	0.37
106_V	325_G	0.597	0.37
257_R	263_D	0.595	0.37
17_P	92_E	0.595	0.37
99_R	106_V	0.594	0.37
142_V	171_G	0.592	0.37
72_A	76_T	0.590	0.37
35_W	107_H	0.590	0.37
257_R	276_V	0.589	0.37
112_I	213_L	0.588	0.36
312_T	318_N	0.587	0.36
131_R	290_D	0.586	0.36
73_E	255_Y	0.583	0.36
137_E	251_L	0.583	0.36
225_I	228_E	0.582	0.36
317_R	323_Q	0.582	0.36
12_P	173_Y	0.580	0.36
137_E	143_V	0.580	0.36
145_L	240_E	0.580	0.36
46_I	263_D	0.580	0.36
73_E	112_I	0.577	0.35
11_D	130_D	0.576	0.35
133_P	290_D	0.575	0.35
112_I	324_Q	0.575	0.35
118_L	200_V	0.575	0.35
289_M	292_V	0.572	0.35
132_I	258_D	0.572	0.35
104_E	185_F	0.570	0.35
249_V	276_V	0.568	0.35
308_L	323_Q	0.568	0.35
26_Y	49_W	0.565	0.34
134_S	258_D	0.565	0.34
186_A	276_V	0.564	0.34
85_Y	101_A	0.563	0.34
312_T	316_E	0.561	0.34
252_E	255_Y	0.561	0.34
122_P	134_S	0.561	0.34
138_K	181_F	0.561	0.34
181_F	214_H	0.560	0.34
26_Y	217_F	0.560	0.34
178_G	199_G	0.559	0.34
145_L	171_G	0.559	0.34
111_F	214_H	0.557	0.34
84_I	168_D	0.557	0.34
87_Y	165_F	0.557	0.34
73_E	181_F	0.556	0.34
258_D	309_N	0.556	0.34
19_D	22_W	0.553	0.33
217_F	220_D	0.553	0.33
185_F	252_E	0.552	0.33
184_G	188_M	0.551	0.33
141_F	247_D	0.551	0.33
21_D	85_Y	0.550	0.33
78_N	105_A	0.550	0.33
43_Q	123_E	0.548	0.33
34_N	66_L	0.546	0.33
250_D	277_E	0.543	0.33
73_E	107_H	0.542	0.32
110_T	176_M	0.541	0.32
115_C	265_L	0.541	0.32
56_D	239_A	0.539	0.32
305_Q	309_N	0.539	0.32
58_E	79_N	0.538	0.32
301_W	305_Q	0.537	0.32
237_F	272_F	0.537	0.32
72_A	110_T	0.534	0.32
271_Q	299_F	0.533	0.32
40_V	199_G	0.532	0.32
227_D	247_D	0.532	0.32
94_R	319_V	0.532	0.32
323_Q	326_G	0.531	0.32
21_D	50_Q	0.531	0.32
133_P	191_L	0.530	0.31
167_R	237_F	0.530	0.31
73_E	278_Y	0.530	0.31
232_V	236_D	0.530	0.31
20_Y	226_R	0.529	0.31
81_V	224_Q	0.528	0.31
222_I	290_D	0.527	0.31
134_S	259_A	0.526	0.31
53_E	56_D	0.526	0.31
114_C	118_L	0.525	0.31
230_P	239_A	0.522	0.31
313_N	319_V	0.521	0.31
186_A	272_F	0.521	0.31
267_M	272_F	0.519	0.31
263_D	269_S	0.519	0.31
66_L	70_S	0.518	0.30
93_C	217_F	0.517	0.30
190_A	276_V	0.517	0.30
186_A	299_F	0.516	0.30
76_T	172_F	0.514	0.30
163_R	167_R	0.511	0.30
15_I	20_Y	0.507	0.30
195_G	307_D	0.507	0.30
19_D	106_V	0.507	0.30
25_E	247_D	0.506	0.29
31_V	99_R	0.505	0.29
285_Q	289_M	0.504	0.29
192_K	197_M	0.504	0.29
97_L	218_G	0.504	0.29
39_E	302_M	0.503	0.29
76_T	80_I	0.502	0.29
219_V	287_L	0.501	0.29
107_H	181_F	0.501	0.29
164_D	253_Q	0.501	0.29
144_G	238_E	0.500	0.29
13_N	16_L	0.500	0.29

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
1syyA	2	0.9094	100	0.069	Contact Map
1mxrA	2	0.9154	100	0.074	Contact Map
2rccA	4	0.8912	100	0.096	Contact Map
1jk0A	1	0.855	100	0.107	Contact Map
1h0oA	2	0.8489	100	0.108	Contact Map
1jk0B	1	0.7583	100	0.109	Contact Map
2p1iA	2	0.7674	100	0.117	Contact Map
3n37A	2	0.8399	100	0.149	Contact Map
3dhzA	2	0.861	100	0.154	Contact Map
4bmoA	2	0.8701	100	0.157	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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