RPOA2 - SULSO - GREMLIN Contacts

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RPOA2 - DNA-directed RNA polymerase subunit A''

UniProt:	P58192	Sequences: MIDEKDKPYLEEKVKQASNILPQKIVDDLKNLILNKEIIVTRDEIDKIFDLAIKEYSEGLIAPGEAIGIVAAQSVGEPGTQMTLRTFHFAGIRELNVTLGLPRLIEIVDAKKVPSTPMMTIYLTDEYKRDRDKALEVARKLEYTKIENVVSSTSIDIASMSIILQLDNEMLKDKGVTVDDVKKAIGRLKLGDFMIEESEDSTLNINFANIDSIAALFKLRDKILNTKIKGIKGIKRAIVQKKGDEYIILTDGSNLSGVLSVKGVDVAKVETNNIREIEEVFGIEAAREIIIREISKVLAEQGLDVDIRHILLIADVMTRTGIVRQIGRHGVTGEKNSVLARAAFEVTVKHLLDAAARGDVEEFKGVVENIIIGHPIKLGTGMVELTMRPILR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	392 (352)
Sequences:	2399 (1380)
Seq/√Len:	73.6

ECOLI - RPOC
BACSU - RPOC
HALSA - RPOA2
SULSO - RPOA2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
107_I	290_I	4.388	1.00
96_N	99_L	3.768	1.00
206_N	209_N	3.490	1.00
277_I	289_I	3.329	1.00
188_L	191_G	3.045	1.00
39_I	48_I	3.010	1.00
116_T	128_K	3.009	1.00
197_E	201_S	2.965	1.00
120_T	123_L	2.926	1.00
285_A	288_E	2.894	1.00
105_I	145_K	2.866	1.00
295_S	299_A	2.860	1.00
108_V	138_A	2.694	1.00
100_G	103_R	2.583	1.00
205_I	208_A	2.577	1.00
292_R	296_K	2.441	1.00
265_D	268_K	2.389	1.00
142_E	148_N	2.375	1.00
106_E	110_A	2.374	1.00
288_E	292_R	2.299	1.00
365_G	368_E	2.281	1.00
194_M	202_T	2.240	1.00
51_L	60_L	2.224	1.00
124_T	129_R	2.218	1.00
102_P	106_E	2.125	1.00
46_D	364_K	2.095	1.00
196_E	202_T	2.058	1.00
197_E	200_D	2.044	1.00
187_R	190_L	2.005	1.00
204_N	207_F	1.985	1.00
204_N	208_A	1.945	1.00
165_Q	171_L	1.910	1.00
353_D	357_R	1.905	1.00
204_N	209_N	1.884	1.00
117_P	120_T	1.881	1.00
61_I	65_E	1.870	1.00
117_P	121_I	1.812	1.00
295_S	305_V	1.804	1.00
342_A	347_T	1.783	1.00
282_G	285_A	1.753	1.00
161_S	165_Q	1.719	1.00
195_I	200_D	1.702	1.00
121_I	125_D	1.694	1.00
107_I	143_Y	1.690	1.00
313_I	349_K	1.686	1.00
139_R	142_E	1.677	1.00
347_T	354_A	1.675	1.00
165_Q	169_E	1.666	1.00
114_P	117_P	1.656	1.00
145_K	148_N	1.653	1.00
160_M	166_L	1.643	1.00
201_S	205_I	1.641	1.00
161_S	171_L	1.636	1.00
369_N	374_H	1.631	1.00
343_A	347_T	1.614	0.99
193_F	196_E	1.613	0.99
156_D	196_E	1.607	0.99
92_I	95_L	1.587	0.99
193_F	205_I	1.587	0.99
117_P	123_L	1.571	0.99
203_L	208_A	1.563	0.99
203_L	206_N	1.553	0.99
138_A	148_N	1.544	0.99
83_T	86_T	1.544	0.99
169_E	173_D	1.522	0.99
168_N	172_K	1.522	0.99
193_F	197_E	1.503	0.99
115_S	119_M	1.498	0.99
331_V	340_A	1.491	0.99
165_Q	173_D	1.485	0.99
169_E	172_K	1.483	0.99
270_E	292_R	1.478	0.99
49_F	52_A	1.473	0.99
166_L	171_L	1.467	0.99
316_V	340_A	1.463	0.99
97_V	102_P	1.456	0.99
120_T	126_E	1.454	0.99
341_R	359_D	1.449	0.99
49_F	54_K	1.431	0.99
281_F	285_A	1.431	0.99
188_L	192_D	1.425	0.99
99_L	102_P	1.416	0.99
196_E	205_I	1.411	0.99
198_S	201_S	1.405	0.99
241_K	244_D	1.401	0.99
177_T	180_D	1.393	0.98
75_V	79_G	1.393	0.98
203_L	207_F	1.387	0.98
129_R	132_D	1.383	0.98
339_L	370_I	1.368	0.98
202_T	205_I	1.365	0.98
240_Q	247_I	1.365	0.98
120_T	124_T	1.355	0.98
195_I	198_S	1.355	0.98
158_A	194_M	1.345	0.98
197_E	207_F	1.344	0.98
369_N	377_K	1.330	0.98
135_L	152_S	1.328	0.98
97_V	100_G	1.317	0.98
116_T	119_M	1.315	0.98
162_I	166_L	1.313	0.98
100_G	110_A	1.302	0.98
42_R	49_F	1.296	0.98
298_L	303_L	1.291	0.97
159_S	163_I	1.291	0.97
158_A	196_E	1.290	0.97
116_T	120_T	1.286	0.97
202_T	207_F	1.281	0.97
102_P	110_A	1.275	0.97
100_G	106_E	1.273	0.97
121_I	124_T	1.268	0.97
252_G	287_R	1.268	0.97
290_I	294_I	1.259	0.97
161_S	172_K	1.258	0.97
48_I	186_G	1.252	0.97
180_D	184_A	1.248	0.97
79_G	326_I	1.240	0.97
125_D	129_R	1.239	0.97
290_I	314_A	1.236	0.97
169_E	180_D	1.235	0.97
195_I	202_T	1.231	0.97
42_R	47_K	1.227	0.97
88_H	91_G	1.222	0.96
98_T	102_P	1.216	0.96
176_V	185_I	1.203	0.96
103_R	106_E	1.203	0.96
196_E	201_S	1.202	0.96
51_L	294_I	1.201	0.96
212_S	215_A	1.200	0.96
254_N	257_G	1.190	0.96
294_I	319_R	1.188	0.96
117_P	128_K	1.186	0.96
186_G	190_L	1.186	0.96
61_I	122_Y	1.179	0.96
171_L	174_K	1.178	0.96
75_V	267_A	1.167	0.95
84_L	286_A	1.163	0.95
195_I	199_E	1.154	0.95
68_G	80_T	1.151	0.95
168_N	171_L	1.150	0.95
133_K	136_E	1.144	0.95
97_V	284_E	1.137	0.95
36_K	39_I	1.134	0.95
258_V	264_V	1.132	0.95
101_L	109_D	1.128	0.94
48_I	52_A	1.127	0.94
167_D	179_D	1.121	0.94
193_F	201_S	1.119	0.94
202_T	206_N	1.118	0.94
183_K	186_G	1.108	0.94
327_G	368_E	1.103	0.94
197_E	202_T	1.101	0.94
42_R	54_K	1.098	0.94
101_L	106_E	1.095	0.93
176_V	180_D	1.086	0.93
122_Y	125_D	1.084	0.93
196_E	207_F	1.080	0.93
137_V	152_S	1.077	0.93
165_Q	172_K	1.070	0.93
42_R	46_D	1.069	0.93
175_G	184_A	1.066	0.93
227_K	232_K	1.065	0.93
109_D	327_G	1.061	0.92
282_G	286_A	1.059	0.92
201_S	204_N	1.058	0.92
355_A	365_G	1.055	0.92
201_S	206_N	1.054	0.92
290_I	321_G	1.051	0.92
160_M	171_L	1.042	0.92
96_N	100_G	1.042	0.92
201_S	208_A	1.041	0.92
211_D	214_A	1.037	0.91
295_S	307_I	1.036	0.91
71_A	313_I	1.034	0.91
272_N	284_E	1.031	0.91
37_E	42_R	1.022	0.91
202_T	208_A	1.019	0.91
229_K	241_K	1.017	0.91
158_A	178_V	1.009	0.90
194_M	205_I	1.006	0.90
363_F	372_I	1.005	0.90
194_M	207_F	0.998	0.90
68_G	81_Q	0.997	0.90
284_E	293_E	0.996	0.90
98_T	104_L	0.992	0.90
117_P	126_E	0.991	0.90
162_I	165_Q	0.986	0.89
102_P	111_K	0.984	0.89
205_I	209_N	0.983	0.89
230_G	342_A	0.981	0.89
160_M	165_Q	0.980	0.89
245_E	268_K	0.980	0.89
186_G	192_D	0.977	0.89
298_L	301_Q	0.974	0.89
99_L	117_P	0.973	0.89
238_I	251_D	0.973	0.89
167_D	173_D	0.967	0.88
292_R	323_V	0.964	0.88
371_I	376_I	0.961	0.88
100_G	284_E	0.957	0.88
119_M	125_D	0.956	0.88
259_L	269_V	0.954	0.88
89_F	92_I	0.952	0.88
75_V	313_I	0.951	0.88
101_L	111_K	0.948	0.87
255_L	259_L	0.944	0.87
49_F	53_I	0.942	0.87
307_I	311_L	0.941	0.87
163_I	174_K	0.937	0.87
123_L	126_E	0.931	0.86
197_E	205_I	0.923	0.86
100_G	107_I	0.923	0.86
103_R	116_T	0.921	0.86
340_A	370_I	0.919	0.86
164_L	170_M	0.917	0.86
67_I	312_L	0.917	0.86
107_I	370_I	0.914	0.85
194_M	198_S	0.912	0.85
141_L	231_I	0.912	0.85
216_L	223_I	0.909	0.85
200_D	205_I	0.907	0.85
174_K	185_I	0.905	0.85
69_I	313_I	0.903	0.85
320_T	324_R	0.902	0.85
123_L	127_Y	0.901	0.85
327_G	377_K	0.901	0.85
79_G	85_R	0.899	0.84
210_I	213_I	0.894	0.84
256_S	261_V	0.892	0.84
103_R	293_E	0.889	0.84
189_K	192_D	0.887	0.84
180_D	371_I	0.885	0.83
138_A	142_E	0.882	0.83
59_G	62_A	0.880	0.83
124_T	263_G	0.879	0.83
56_Y	287_R	0.875	0.83
117_P	272_N	0.874	0.83
98_T	103_R	0.870	0.82
31_N	271_T	0.864	0.82
295_S	310_I	0.863	0.82
319_R	336_N	0.863	0.82
64_G	361_E	0.862	0.82
51_L	55_E	0.862	0.82
200_D	208_A	0.861	0.82
222_K	372_I	0.859	0.82
160_M	173_D	0.859	0.82
31_N	43_D	0.857	0.81
201_S	207_F	0.855	0.81
294_I	382_M	0.855	0.81
78_P	88_H	0.855	0.81
187_R	205_I	0.851	0.81
323_V	327_G	0.848	0.81
96_N	137_V	0.840	0.80
278_E	323_V	0.838	0.80
281_F	284_E	0.835	0.80
165_Q	168_N	0.833	0.80
174_K	177_T	0.832	0.80
89_F	95_L	0.831	0.79
196_E	203_L	0.831	0.79
317_M	326_I	0.830	0.79
166_L	181_V	0.830	0.79
193_F	203_L	0.830	0.79
162_I	171_L	0.830	0.79
270_E	289_I	0.828	0.79
195_I	203_L	0.827	0.79
226_T	239_V	0.826	0.79
123_L	134_A	0.822	0.79
170_M	177_T	0.817	0.78
85_R	298_L	0.816	0.78
62_A	69_I	0.816	0.78
122_Y	269_V	0.816	0.78
342_A	350_H	0.815	0.78
252_G	284_E	0.813	0.78
284_E	321_G	0.807	0.77
325_Q	377_K	0.807	0.77
194_M	199_E	0.806	0.77
347_T	371_I	0.804	0.77
184_A	187_R	0.803	0.77
111_K	331_V	0.802	0.77
347_T	381_G	0.802	0.77
161_S	167_D	0.801	0.77
227_K	230_G	0.800	0.77
164_L	174_K	0.797	0.77
79_G	368_E	0.796	0.76
235_K	296_K	0.796	0.76
274_I	286_A	0.792	0.76
165_Q	200_D	0.792	0.76
291_I	314_A	0.790	0.76
42_R	53_I	0.789	0.76
118_M	128_K	0.788	0.76
48_I	96_N	0.785	0.75
133_K	155_I	0.784	0.75
324_R	327_G	0.784	0.75
98_T	110_A	0.782	0.75
110_A	117_P	0.782	0.75
102_P	107_I	0.781	0.75
101_L	107_I	0.779	0.75
201_S	209_N	0.777	0.75
68_G	77_E	0.777	0.75
373_G	379_G	0.776	0.75
166_L	177_T	0.775	0.74
351_L	368_E	0.775	0.74
126_E	130_D	0.774	0.74
103_R	149_V	0.774	0.74
168_N	179_D	0.773	0.74
108_V	294_I	0.772	0.74
340_A	367_V	0.767	0.74
65_E	301_Q	0.764	0.73
284_E	385_L	0.761	0.73
107_I	117_P	0.760	0.73
358_G	362_E	0.759	0.73
290_I	317_M	0.755	0.73
98_T	106_E	0.754	0.72
105_I	109_D	0.752	0.72
298_L	350_H	0.747	0.72
104_L	109_D	0.747	0.72
75_V	307_I	0.746	0.72
346_V	366_V	0.746	0.72
96_N	223_I	0.745	0.72
136_E	140_K	0.745	0.72
149_V	228_I	0.745	0.72
108_V	150_V	0.743	0.71
178_V	181_V	0.741	0.71
171_L	180_D	0.741	0.71
128_K	131_R	0.739	0.71
99_L	104_L	0.738	0.71
196_E	200_D	0.734	0.70
200_D	204_N	0.733	0.70
346_V	349_K	0.731	0.70
320_T	365_G	0.731	0.70
165_Q	174_K	0.730	0.70
84_L	328_R	0.728	0.70
325_Q	351_L	0.726	0.70
103_R	117_P	0.721	0.69
122_Y	132_D	0.719	0.69
94_E	271_T	0.719	0.69
326_I	368_E	0.718	0.69
107_I	110_A	0.716	0.69
100_G	116_T	0.716	0.69
172_K	183_K	0.716	0.69
93_R	99_L	0.714	0.68
103_R	285_A	0.711	0.68
163_I	172_K	0.710	0.68
78_P	82_M	0.709	0.68
100_G	104_L	0.709	0.68
85_R	341_R	0.707	0.68
347_T	365_G	0.707	0.68
46_D	312_L	0.707	0.68
160_M	163_I	0.701	0.67
271_T	321_G	0.700	0.67
47_K	50_D	0.699	0.67
117_P	122_Y	0.698	0.67
196_E	204_N	0.697	0.66
117_P	130_D	0.696	0.66
102_P	284_E	0.695	0.66
162_I	172_K	0.695	0.66
76_G	81_Q	0.693	0.66
122_Y	268_K	0.692	0.66
89_F	300_E	0.691	0.66
102_P	117_P	0.690	0.66
190_L	196_E	0.690	0.66
99_L	158_A	0.686	0.65
163_I	171_L	0.685	0.65
193_F	200_D	0.685	0.65
104_L	290_I	0.684	0.65
40_V	321_G	0.683	0.65
327_G	343_A	0.682	0.65
122_Y	247_I	0.682	0.65
102_P	116_T	0.680	0.65
39_I	262_K	0.679	0.64
85_R	376_I	0.675	0.64
199_E	202_T	0.673	0.64
329_H	340_A	0.673	0.64
194_M	201_S	0.671	0.64
142_E	371_I	0.669	0.63
124_T	131_R	0.668	0.63
186_G	191_G	0.668	0.63
79_G	301_Q	0.666	0.63
95_L	98_T	0.662	0.62
186_G	189_K	0.662	0.62
126_E	129_R	0.661	0.62
180_D	185_I	0.657	0.62
323_V	368_E	0.656	0.62
42_R	52_A	0.655	0.62
85_R	325_Q	0.652	0.61
100_G	293_E	0.652	0.61
124_T	132_D	0.650	0.61
55_E	58_E	0.649	0.61
82_M	89_F	0.648	0.61
307_I	329_H	0.647	0.61
197_E	208_A	0.647	0.61
102_P	149_V	0.646	0.61
194_M	204_N	0.644	0.60
168_N	205_I	0.644	0.60
110_A	323_V	0.643	0.60
87_F	91_G	0.642	0.60
136_E	142_E	0.640	0.60
68_G	76_G	0.640	0.60
38_I	42_R	0.638	0.60
252_G	255_L	0.638	0.60
164_L	178_V	0.633	0.59
47_K	54_K	0.633	0.59
248_I	252_G	0.631	0.59
131_R	241_K	0.630	0.59
277_I	285_A	0.629	0.59
123_L	130_D	0.628	0.58
96_N	103_R	0.627	0.58
175_G	181_V	0.623	0.58
132_D	245_E	0.620	0.57
77_E	80_T	0.617	0.57
320_T	332_T	0.616	0.57
51_L	54_K	0.615	0.57
107_I	111_K	0.615	0.57
71_A	316_V	0.614	0.57
67_I	367_V	0.614	0.57
161_S	166_L	0.613	0.57
117_P	129_R	0.612	0.56
104_L	107_I	0.612	0.56
286_A	323_V	0.611	0.56
120_T	318_T	0.610	0.56
255_L	321_G	0.610	0.56
61_I	341_R	0.608	0.56
76_G	79_G	0.608	0.56
97_V	103_R	0.607	0.56
301_Q	367_V	0.605	0.56
100_G	117_P	0.605	0.56
326_I	347_T	0.604	0.56
296_K	300_E	0.604	0.56
177_T	199_E	0.603	0.55
338_V	358_G	0.600	0.55
121_I	258_V	0.599	0.55
63_P	284_E	0.599	0.55
196_E	209_N	0.598	0.55
182_K	185_I	0.593	0.54
164_L	169_E	0.593	0.54
63_P	96_N	0.592	0.54
116_T	139_R	0.592	0.54
176_V	184_A	0.592	0.54
59_G	67_I	0.591	0.54
325_Q	342_A	0.590	0.54
57_S	374_H	0.589	0.54
182_K	186_G	0.588	0.54
157_I	211_D	0.587	0.53
70_V	270_E	0.587	0.53
210_I	214_A	0.586	0.53
164_L	185_I	0.578	0.52
183_K	190_L	0.577	0.52
347_T	351_L	0.577	0.52
178_V	206_N	0.575	0.52
236_R	240_Q	0.575	0.52
320_T	355_A	0.575	0.52
64_G	68_G	0.574	0.52
284_E	287_R	0.574	0.52
61_I	70_V	0.573	0.52
105_I	146_I	0.570	0.51
83_T	91_G	0.570	0.51
318_T	323_V	0.570	0.51
163_I	175_G	0.570	0.51
342_A	352_L	0.569	0.51
40_V	262_K	0.568	0.51
63_P	383_V	0.567	0.51
172_K	180_D	0.567	0.51
303_L	310_I	0.566	0.51
283_I	312_L	0.563	0.50
85_R	301_Q	0.563	0.50
338_V	350_H	0.562	0.50
89_F	301_Q	0.561	0.50
121_I	129_R	0.560	0.50
347_T	350_H	0.560	0.50
297_V	329_H	0.559	0.50
118_M	127_Y	0.558	0.50
273_N	284_E	0.556	0.50
301_Q	340_A	0.556	0.50
166_L	198_S	0.556	0.50
129_R	271_T	0.556	0.50
93_R	301_Q	0.555	0.49
226_T	231_I	0.554	0.49
183_K	193_F	0.552	0.49
71_A	340_A	0.552	0.49
297_V	354_A	0.550	0.49
103_R	109_D	0.550	0.49
316_V	338_V	0.549	0.49
166_L	179_D	0.549	0.49
92_I	101_L	0.548	0.49
78_P	87_F	0.547	0.48
53_I	377_K	0.545	0.48
191_G	377_K	0.545	0.48
38_I	53_I	0.540	0.48
164_L	168_N	0.539	0.47
158_A	169_E	0.539	0.47
71_A	309_H	0.539	0.47
200_D	211_D	0.538	0.47
324_R	355_A	0.538	0.47
76_G	80_T	0.537	0.47
264_V	293_E	0.535	0.47
105_I	111_K	0.535	0.47
195_I	208_A	0.534	0.47
275_R	278_E	0.534	0.47
104_L	284_E	0.531	0.46
63_P	102_P	0.531	0.46
219_L	256_S	0.529	0.46
166_L	169_E	0.528	0.46
73_Q	81_Q	0.525	0.46
346_V	350_H	0.525	0.46
47_K	53_I	0.523	0.45
105_I	117_P	0.523	0.45
250_T	328_R	0.522	0.45
322_I	359_D	0.520	0.45
53_I	302_G	0.519	0.45
169_E	176_V	0.519	0.45
104_L	312_L	0.518	0.45
320_T	327_G	0.517	0.45
225_N	242_K	0.516	0.45
320_T	333_G	0.513	0.44
172_K	175_G	0.513	0.44
69_I	290_I	0.512	0.44
73_Q	76_G	0.512	0.44
57_S	362_E	0.512	0.44
189_K	195_I	0.511	0.44
298_L	366_V	0.511	0.44
158_A	198_S	0.509	0.44
108_V	327_G	0.509	0.44
197_E	206_N	0.508	0.44
100_G	321_G	0.507	0.44
236_R	248_I	0.505	0.43
298_L	346_V	0.504	0.43
119_M	128_K	0.504	0.43
112_K	349_K	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
4c2mA	1	0.949	100	0.162	Contact Map
1twfA	1	0.9668	100	0.169	Contact Map
3h0gA	2	0.9949	100	0.171	Contact Map
4aybC	1	0.9464	100	0.175	Contact Map
4qiwC	1	0.9413	100	0.186	Contact Map
4yfkD	1	0.625	100	0.256	Contact Map
2a6hD	1	0.7092	100	0.358	Contact Map
1hqmD	1	0.7194	100	0.366	Contact Map
4iqzA	4	0.3138	99.8	0.83	Contact Map
3ltiA	1	0.301	83.2	0.959	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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