RSIV - BACSU - GREMLIN Contacts

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RSIV - Anti-sigma-V factor RsiV

UniProt:	O05403	Sequences: MDKRLQQLREEYKNVQIPKELDIIVEKALQQEPKKKRIVMWPTSAAIAAAILFTALVNINPDAAQAMSKIPVIGKIVKAITFIEIKEEKDQSSIDVKTPALSGLSNKELENSINEKYLKESQQLYKEFIQSTSKNKKGHLSIYSDYETVTDTPDLLSIRRNIETTQASSYTQSRYITIDKKNDILLTLKSLFKDERYIKVISQNIKEQMKQQMKEDPNKIYWLTDEDAEPFKTILPDQTFYITEDHKLVISFDEYEVAPGYMGVTEFTIPTGVISNLLVGERYIR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	285 (236)
Sequences:	918 (828)
Seq/√Len:	53.9

BACSU - RSIV

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
168_S	260_G	5.287	1.00
56_L	59_I	4.860	1.00
255_Y	260_G	4.547	1.00
168_S	255_Y	3.797	1.00
205_I	250_I	3.562	1.00
163_E	169_S	3.500	1.00
165_T	168_S	3.285	1.00
141_S	163_E	3.156	1.00
241_Y	249_V	2.809	1.00
192_F	197_Y	2.693	1.00
246_H	271_T	2.628	1.00
243_T	268_T	2.445	1.00
259_P	262_M	2.273	1.00
254_E	260_G	2.231	1.00
274_I	277_L	2.230	1.00
171_T	254_E	2.193	1.00
179_D	182_N	2.116	1.00
242_I	271_T	2.062	1.00
169_S	260_G	2.047	1.00
206_K	210_K	2.018	1.00
99_P	146_Y	1.995	1.00
253_D	256_E	1.992	1.00
249_V	266_E	1.984	1.00
246_H	268_T	1.968	1.00
207_E	211_Q	1.954	1.00
209_M	267_F	1.941	1.00
165_T	169_S	1.915	1.00
188_L	240_F	1.874	0.99
53_F	56_L	1.767	0.99
208_Q	211_Q	1.760	0.99
129_I	133_S	1.744	0.99
237_D	252_F	1.741	0.99
54_T	57_V	1.739	0.99
150_T	240_F	1.739	0.99
201_I	250_I	1.735	0.99
170_Y	254_E	1.712	0.99
204_N	208_Q	1.702	0.99
209_M	234_I	1.667	0.99
169_S	254_E	1.664	0.99
175_Y	251_S	1.654	0.99
184_I	190_S	1.640	0.98
204_N	207_E	1.617	0.98
205_I	267_F	1.615	0.98
169_S	255_Y	1.609	0.98
241_Y	251_S	1.587	0.98
107_K	110_E	1.544	0.98
186_L	190_S	1.543	0.98
243_T	249_V	1.542	0.98
53_F	57_V	1.526	0.98
151_D	180_K	1.523	0.98
255_Y	263_G	1.516	0.97
165_T	255_Y	1.513	0.97
168_S	261_Y	1.497	0.97
118_L	122_Q	1.478	0.97
117_Y	176_I	1.469	0.97
188_L	250_I	1.418	0.96
258_A	262_M	1.389	0.96
188_L	237_D	1.379	0.96
205_I	234_I	1.374	0.95
199_K	203_Q	1.336	0.95
165_T	260_G	1.321	0.94
243_T	246_H	1.313	0.94
50_A	53_F	1.289	0.94
70_I	73_I	1.288	0.94
253_D	264_V	1.287	0.94
191_L	240_F	1.261	0.93
208_Q	267_F	1.258	0.93
237_D	250_I	1.254	0.93
201_I	277_L	1.247	0.92
251_S	264_V	1.245	0.92
147_E	159_R	1.243	0.92
149_V	157_S	1.239	0.92
188_L	248_L	1.230	0.92
166_Q	170_Y	1.229	0.92
140_L	167_A	1.229	0.92
54_T	272_G	1.229	0.92
236_P	250_I	1.212	0.91
258_A	263_G	1.203	0.91
200_V	203_Q	1.203	0.91
209_M	257_V	1.200	0.91
124_L	128_F	1.197	0.91
163_E	167_A	1.195	0.91
111_N	115_E	1.185	0.90
216_D	221_Y	1.183	0.90
209_M	252_F	1.176	0.90
127_E	131_S	1.176	0.90
197_Y	234_I	1.174	0.90
205_I	209_M	1.163	0.89
239_T	250_I	1.162	0.89
157_S	175_Y	1.159	0.89
170_Y	255_Y	1.153	0.89
113_I	116_K	1.152	0.89
154_D	181_K	1.136	0.88
239_T	253_D	1.135	0.88
45_A	49_A	1.133	0.88
177_T	242_I	1.132	0.88
168_S	263_G	1.131	0.88
168_S	254_E	1.110	0.87
148_T	158_I	1.105	0.87
192_F	202_S	1.095	0.86
204_N	274_I	1.094	0.86
95_D	143_Y	1.093	0.86
259_P	263_G	1.079	0.86
213_M	258_A	1.077	0.86
155_L	186_L	1.076	0.85
125_Y	129_I	1.062	0.85
155_L	177_T	1.060	0.85
175_Y	240_F	1.057	0.84
161_N	173_S	1.055	0.84
140_L	166_Q	1.053	0.84
236_P	252_F	1.047	0.84
160_R	176_I	1.046	0.84
205_I	269_I	1.041	0.84
110_E	114_N	1.040	0.83
178_I	185_L	1.039	0.83
88_E	93_S	1.031	0.83
234_I	278_L	1.022	0.82
113_I	183_D	1.003	0.81
239_T	256_E	0.998	0.81
242_I	278_L	0.991	0.80
101_L	148_T	0.987	0.80
186_L	191_L	0.982	0.80
109_L	183_D	0.981	0.80
173_S	251_S	0.977	0.79
106_N	110_E	0.973	0.79
101_L	158_I	0.971	0.79
235_L	256_E	0.963	0.78
204_N	273_V	0.962	0.78
128_F	132_T	0.949	0.77
175_Y	239_T	0.940	0.77
158_I	209_M	0.934	0.76
231_F	234_I	0.932	0.76
46_A	133_S	0.931	0.76
163_E	170_Y	0.906	0.74
202_S	231_F	0.902	0.74
202_S	209_M	0.898	0.73
251_S	266_E	0.896	0.73
149_V	159_R	0.894	0.73
132_T	274_I	0.892	0.73
52_L	232_K	0.889	0.73
55_A	59_I	0.888	0.73
179_D	184_I	0.870	0.71
192_F	278_L	0.867	0.71
108_E	115_E	0.867	0.71
83_I	90_D	0.861	0.70
116_K	176_I	0.850	0.69
96_V	161_N	0.850	0.69
106_N	201_I	0.848	0.69
64_A	124_L	0.847	0.69
123_Q	127_E	0.844	0.69
255_Y	261_Y	0.844	0.69
208_Q	273_V	0.837	0.68
70_I	75_K	0.836	0.68
215_E	226_E	0.834	0.68
120_E	128_F	0.833	0.68
146_Y	157_S	0.831	0.67
198_I	231_F	0.830	0.67
73_I	80_I	0.823	0.67
51_I	211_Q	0.823	0.67
156_L	180_K	0.822	0.67
183_D	267_F	0.821	0.67
129_I	242_I	0.820	0.66
190_S	240_F	0.817	0.66
46_A	52_L	0.813	0.66
202_S	234_I	0.812	0.66
270_P	273_V	0.810	0.65
135_N	138_G	0.807	0.65
146_Y	158_I	0.804	0.65
167_A	260_G	0.799	0.64
85_I	241_Y	0.798	0.64
193_K	276_N	0.795	0.64
153_P	211_Q	0.791	0.64
212_Q	265_T	0.790	0.64
186_L	246_H	0.789	0.63
210_K	215_E	0.778	0.62
137_K	182_N	0.776	0.62
250_I	267_F	0.776	0.62
188_L	276_N	0.774	0.62
257_V	267_F	0.772	0.62
49_A	56_L	0.772	0.62
260_G	271_T	0.771	0.62
188_L	277_L	0.769	0.61
192_F	276_N	0.769	0.61
54_T	69_K	0.765	0.61
188_L	192_F	0.765	0.61
175_Y	266_E	0.765	0.61
62_D	119_K	0.764	0.61
74_G	77_V	0.763	0.61
215_E	221_Y	0.760	0.61
107_K	111_N	0.758	0.60
274_I	278_L	0.757	0.60
151_D	156_L	0.755	0.60
158_I	189_K	0.753	0.60
209_M	213_M	0.749	0.59
131_S	134_K	0.744	0.59
151_D	179_D	0.737	0.58
126_K	129_I	0.737	0.58
249_V	268_T	0.735	0.58
77_V	205_I	0.735	0.58
148_T	151_D	0.735	0.58
197_Y	242_I	0.731	0.58
60_N	134_K	0.730	0.57
148_T	156_L	0.729	0.57
171_T	260_G	0.727	0.57
206_K	209_M	0.726	0.57
103_G	245_D	0.720	0.56
257_V	263_G	0.717	0.56
218_N	221_Y	0.711	0.55
236_P	267_F	0.710	0.55
92_S	201_I	0.709	0.55
63_A	66_A	0.703	0.55
254_E	265_T	0.703	0.55
234_I	252_F	0.699	0.54
46_A	217_P	0.697	0.54
109_L	113_I	0.695	0.54
254_E	259_P	0.694	0.54
86_K	91_Q	0.694	0.54
154_D	226_E	0.685	0.53
227_D	232_K	0.680	0.52
126_K	130_Q	0.679	0.52
143_Y	147_E	0.678	0.52
62_D	78_K	0.678	0.52
258_A	261_Y	0.678	0.52
62_D	65_Q	0.677	0.52
120_E	123_Q	0.676	0.52
41_W	244_E	0.676	0.52
51_I	54_T	0.675	0.52
122_Q	126_K	0.674	0.52
185_L	278_L	0.672	0.51
109_L	182_N	0.672	0.51
166_Q	169_S	0.670	0.51
147_E	222_W	0.670	0.51
49_A	207_E	0.667	0.51
51_I	60_N	0.664	0.50
163_E	171_T	0.664	0.50
93_S	141_S	0.664	0.50
144_S	162_I	0.662	0.50
253_D	260_G	0.662	0.50
106_N	112_S	0.659	0.50
207_E	210_K	0.655	0.49
190_S	279_V	0.651	0.49
230_P	233_T	0.651	0.49
159_R	173_S	0.651	0.49
253_D	258_A	0.647	0.49
234_I	257_V	0.639	0.48
44_S	51_I	0.638	0.48
216_D	267_F	0.636	0.47
68_S	273_V	0.635	0.47
160_R	175_Y	0.628	0.47
164_T	170_Y	0.627	0.47
91_Q	265_T	0.625	0.46
53_F	58_N	0.625	0.46
83_I	98_T	0.624	0.46
97_K	145_D	0.623	0.46
48_A	275_S	0.622	0.46
148_T	157_S	0.622	0.46
140_L	146_Y	0.622	0.46
63_A	191_L	0.620	0.46
96_V	258_A	0.620	0.46
202_S	256_E	0.619	0.46
237_D	267_F	0.618	0.46
69_K	113_I	0.616	0.45
115_E	118_L	0.614	0.45
202_S	236_P	0.614	0.45
52_L	55_A	0.613	0.45
188_L	259_P	0.608	0.45
177_T	279_V	0.605	0.44
170_Y	253_D	0.603	0.44
52_L	132_T	0.598	0.43
49_A	145_D	0.597	0.43
100_A	256_E	0.597	0.43
63_A	102_S	0.596	0.43
201_I	248_L	0.595	0.43
62_D	66_A	0.595	0.43
186_L	248_L	0.593	0.43
248_L	271_T	0.592	0.43
214_K	219_K	0.591	0.43
45_A	134_K	0.590	0.43
175_Y	183_D	0.587	0.42
115_E	242_I	0.586	0.42
221_Y	252_F	0.585	0.42
193_K	197_Y	0.584	0.42
105_S	108_E	0.584	0.42
163_E	168_S	0.583	0.42
166_Q	255_Y	0.583	0.42
99_P	102_S	0.582	0.42
107_K	181_K	0.582	0.42
265_T	270_P	0.582	0.42
79_A	82_F	0.581	0.42
111_N	122_Q	0.581	0.42
189_K	198_I	0.581	0.42
172_Q	254_E	0.579	0.41
109_L	112_S	0.577	0.41
197_Y	236_P	0.576	0.41
197_Y	201_I	0.576	0.41
144_S	177_T	0.572	0.41
200_V	204_N	0.565	0.40
71_P	74_G	0.564	0.40
157_S	185_L	0.564	0.40
42_P	50_A	0.559	0.39
72_V	81_T	0.558	0.39
172_Q	253_D	0.557	0.39
178_I	266_E	0.556	0.39
193_K	196_R	0.556	0.39
67_M	130_Q	0.555	0.39
238_Q	250_I	0.553	0.39
117_Y	177_T	0.553	0.39
102_S	192_F	0.551	0.39
56_L	61_P	0.549	0.38
107_K	114_N	0.549	0.38
91_Q	101_L	0.547	0.38
156_L	248_L	0.547	0.38
64_A	74_G	0.545	0.38
112_S	184_I	0.544	0.38
117_Y	242_I	0.541	0.38
53_F	111_N	0.540	0.38
92_S	99_P	0.539	0.37
85_I	98_T	0.537	0.37
146_Y	240_F	0.537	0.37
220_I	227_D	0.535	0.37
96_V	142_I	0.534	0.37
116_K	238_Q	0.534	0.37
240_F	278_L	0.533	0.37
223_L	227_D	0.531	0.37
51_I	243_T	0.530	0.37
70_I	77_V	0.530	0.37
71_P	272_G	0.529	0.36
157_S	236_P	0.529	0.36
233_T	238_Q	0.525	0.36
167_A	254_E	0.524	0.36
57_V	60_N	0.524	0.36
205_I	208_Q	0.522	0.36
129_I	258_A	0.521	0.36
53_F	203_Q	0.520	0.36
142_I	164_T	0.520	0.36
147_E	185_L	0.519	0.35
152_T	240_F	0.519	0.35
106_N	228_A	0.517	0.35
63_A	269_I	0.517	0.35
69_K	72_V	0.516	0.35
124_L	156_L	0.516	0.35
174_R	178_I	0.515	0.35
63_A	201_I	0.514	0.35
158_I	170_Y	0.512	0.35
55_A	130_Q	0.508	0.34
212_Q	219_K	0.506	0.34
152_T	180_K	0.506	0.34
252_F	256_E	0.505	0.34
62_D	77_V	0.505	0.34
76_I	79_A	0.505	0.34
111_N	114_N	0.503	0.34
71_P	127_E	0.502	0.34
205_I	256_E	0.500	0.34
165_T	170_Y	0.500	0.34

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
3s5tA	2	0.7544	100	0.506	Contact Map
3cygA	1	0.7158	100	0.506	Contact Map
4e72A	1	0.7404	100	0.538	Contact Map
2hhiA	1	0.6947	100	0.569	Contact Map
2c1iA	1	0.586	94.5	0.914	Contact Map
4mfiA	1	0.7088	41.5	0.949	Contact Map
3zbiC	1	0.0877	24	0.955	Contact Map
4uu4A	1	0.4912	19.8	0.957	Contact Map
4r9fA	1	0.5088	18.9	0.957	Contact Map
3vejA	2	0.0772	14.8	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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