Ebp2 - PFAM28P - GREMLIN Contacts

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Ebp2 - Eukaryotic rRNA processing protein EBP2

PFAM:	PF05890	Sequences: EEDIELSDLEDGELEPGEDVVPHEPQKLTINNKAALKAKLERIKLKKLPWIEHLDVTSDPAPIDDVNDDLKRELAFYKQALAAVLEARPLLKKLGVPFSRPDDYFAEMVKSDEHMEKIKQKLLDEAAAIKASEEARKQRELKKFGKQVQVEKLQERQKEKKETLEKIKKLKKKRKGLDFLDDDDDDEFDVAVEDAKKKKKKKKGGGGKKGKPNKKRQAKDAKFGFGGKKRGSKSNTAESSNDFSGFSAKKGGGGGKKGKKKRPGKSRR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	268 (266)
Sequences:	543 (407)
Seq/√Len:	24.9
META:	0.136

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
264_G	268_R	3.645	1.00
5_E	8_D	3.617	1.00
263_P	268_R	2.995	1.00
145_G	156_R	2.953	1.00
132_S	136_R	2.953	1.00
251_G	254_G	2.916	1.00
262_R	268_R	2.812	0.99
265_K	268_R	2.710	0.99
201_K	205_G	2.692	0.99
138_Q	141_L	2.545	0.99
155_E	159_E	2.540	0.99
261_K	267_R	2.362	0.98
91_L	96_V	2.294	0.98
148_V	156_R	2.269	0.98
203_K	206_G	2.213	0.97
50_W	54_L	2.190	0.97
262_R	265_K	2.163	0.97
70_L	125_E	2.148	0.97
6_L	11_D	2.058	0.96
139_R	149_Q	2.026	0.95
231_G	234_S	2.016	0.95
27_K	95_G	1.984	0.95
7_S	10_E	1.969	0.94
39_K	42_R	1.950	0.94
228_K	231_G	1.944	0.94
4_I	8_D	1.934	0.94
132_S	139_R	1.877	0.93
141_L	145_G	1.843	0.92
235_N	238_E	1.835	0.92
2_E	5_E	1.813	0.91
157_Q	161_K	1.754	0.90
163_T	167_I	1.753	0.90
6_L	9_L	1.733	0.90
254_G	259_K	1.716	0.89
135_A	141_L	1.708	0.89
256_K	259_K	1.697	0.88
158_K	162_E	1.678	0.88
166_K	173_K	1.660	0.87
237_A	241_N	1.650	0.87
136_R	140_E	1.628	0.86
135_A	138_Q	1.601	0.85
256_K	260_K	1.579	0.85
69_D	76_F	1.565	0.84
85_L	89_P	1.537	0.83
126_A	130_K	1.536	0.83
157_Q	160_K	1.530	0.83
90_L	94_L	1.528	0.82
242_D	246_F	1.519	0.82
224_G	227_G	1.514	0.82
69_D	104_Y	1.510	0.82
185_D	232_S	1.507	0.82
152_K	156_R	1.451	0.79
199_K	202_K	1.450	0.79
56_V	123_L	1.448	0.79
14_L	18_E	1.446	0.79
186_D	190_V	1.443	0.79
15_E	18_E	1.443	0.79
213_N	220_D	1.433	0.78
226_G	229_K	1.430	0.78
69_D	72_R	1.421	0.78
198_K	201_K	1.412	0.77
4_I	7_S	1.392	0.76
84_V	117_K	1.381	0.75
86_E	90_L	1.378	0.75
257_K	260_K	1.366	0.75
153_L	156_R	1.364	0.75
88_R	98_F	1.360	0.74
128_A	132_S	1.358	0.74
23_H	28_L	1.354	0.74
35_A	43_I	1.348	0.74
201_K	206_G	1.344	0.73
202_K	259_K	1.343	0.73
132_S	135_A	1.340	0.73
43_I	267_R	1.335	0.73
148_V	151_E	1.334	0.73
54_L	96_V	1.333	0.73
57_T	95_G	1.332	0.73
202_K	205_G	1.325	0.72
201_K	204_G	1.317	0.72
111_S	225_F	1.312	0.72
10_E	13_E	1.302	0.71
50_W	131_A	1.297	0.71
65_D	77_Y	1.292	0.70
246_F	256_K	1.286	0.70
12_G	15_E	1.284	0.70
110_K	114_H	1.282	0.70
91_L	94_L	1.277	0.69
131_A	135_A	1.276	0.69
150_V	154_Q	1.272	0.69
185_D	247_S	1.263	0.69
165_E	168_K	1.250	0.68
48_L	56_V	1.250	0.68
152_K	155_E	1.237	0.67
8_D	12_G	1.235	0.67
135_A	139_R	1.235	0.67
2_E	266_S	1.227	0.66
56_V	86_E	1.220	0.66
124_D	127_A	1.209	0.65
199_K	203_K	1.201	0.65
41_E	44_K	1.195	0.64
218_A	221_A	1.180	0.63
252_G	255_G	1.178	0.63
207_G	210_G	1.178	0.63
52_E	112_D	1.174	0.63
84_V	188_F	1.154	0.61
212_P	220_D	1.152	0.61
165_E	263_P	1.142	0.61
216_R	220_D	1.140	0.60
137_K	142_K	1.134	0.60
121_K	141_L	1.130	0.60
249_K	267_R	1.122	0.59
32_N	137_K	1.119	0.59
114_H	128_A	1.111	0.58
136_R	174_R	1.110	0.58
118_I	194_D	1.106	0.58
93_K	111_S	1.096	0.57
12_G	17_G	1.094	0.57
253_G	256_K	1.088	0.57
90_L	143_K	1.087	0.57
19_D	22_P	1.082	0.56
65_D	68_D	1.081	0.56
9_L	12_G	1.080	0.56
156_R	173_K	1.070	0.56
122_L	161_K	1.064	0.55
33_K	80_A	1.059	0.55
194_D	256_K	1.053	0.54
104_Y	139_R	1.052	0.54
263_P	266_S	1.047	0.54
87_A	173_K	1.045	0.54
230_R	239_S	1.043	0.54
51_I	133_E	1.042	0.54
68_D	71_K	1.040	0.53
81_L	155_E	1.039	0.53
147_Q	151_E	1.033	0.53
39_K	171_K	1.025	0.52
81_L	85_L	1.025	0.52
206_G	209_K	1.020	0.52
78_K	85_L	1.019	0.52
7_S	12_G	1.016	0.52
166_K	170_L	1.014	0.52
135_A	171_K	1.006	0.51
33_K	36_L	1.005	0.51
85_L	154_Q	1.004	0.51
56_V	83_A	1.003	0.51
50_W	80_A	0.999	0.50
177_L	180_L	0.998	0.50
45_L	87_A	0.992	0.50
145_G	149_Q	0.988	0.50
67_N	120_Q	0.987	0.50
210_G	213_N	0.980	0.49
184_D	187_E	0.978	0.49
36_L	111_S	0.976	0.49
182_D	207_G	0.974	0.49
81_L	98_F	0.973	0.49
118_I	175_K	0.973	0.49
10_E	17_G	0.969	0.48
114_H	123_L	0.968	0.48
32_N	170_L	0.968	0.48
88_R	136_R	0.967	0.48
132_S	145_G	0.950	0.47
74_L	77_Y	0.948	0.47
168_K	171_K	0.948	0.47
42_R	50_W	0.946	0.47
242_D	245_G	0.945	0.47
70_L	98_F	0.944	0.46
93_K	120_Q	0.941	0.46
227_G	239_S	0.940	0.46
63_I	66_V	0.935	0.46
210_G	261_K	0.931	0.46
144_F	148_V	0.930	0.45
198_K	203_K	0.929	0.45
112_D	122_L	0.929	0.45
162_E	237_A	0.929	0.45
6_L	20_V	0.928	0.45
79_Q	168_K	0.924	0.45
77_Y	87_A	0.921	0.45
65_D	81_L	0.915	0.44
75_A	170_L	0.914	0.44
172_K	176_G	0.908	0.44
215_K	219_K	0.901	0.43
88_R	131_A	0.899	0.43
104_Y	149_Q	0.899	0.43
57_T	167_I	0.890	0.43
245_G	248_A	0.887	0.42
203_K	207_G	0.887	0.42
32_N	35_A	0.885	0.42
251_G	257_K	0.880	0.42
118_I	191_A	0.878	0.42
79_Q	235_N	0.878	0.42
114_H	161_K	0.875	0.42
7_S	19_D	0.874	0.41
46_K	80_A	0.873	0.41
77_Y	110_K	0.872	0.41
118_I	127_A	0.866	0.41
5_E	9_L	0.861	0.41
60_P	191_A	0.857	0.40
81_L	125_E	0.855	0.40
243_F	247_S	0.852	0.40
56_V	65_D	0.852	0.40
123_L	127_A	0.845	0.39
64_D	251_G	0.837	0.39
199_K	205_G	0.835	0.39
66_V	79_Q	0.835	0.39
243_F	246_F	0.833	0.39
81_L	159_E	0.832	0.39
129_I	135_A	0.825	0.38
216_R	226_G	0.820	0.38
119_K	145_G	0.819	0.38
22_P	27_K	0.816	0.37
51_I	94_L	0.815	0.37
200_K	206_G	0.813	0.37
139_R	145_G	0.810	0.37
213_N	216_R	0.809	0.37
10_E	16_P	0.808	0.37
39_K	54_L	0.806	0.37
29_T	50_W	0.802	0.37
225_F	229_K	0.801	0.36
124_D	219_K	0.798	0.36
230_R	242_D	0.797	0.36
255_G	260_K	0.794	0.36
50_W	53_H	0.794	0.36
216_R	219_K	0.793	0.36
200_K	203_K	0.791	0.36
144_F	151_E	0.787	0.36
214_K	217_Q	0.785	0.35
111_S	184_D	0.785	0.35
160_K	227_G	0.784	0.35
133_E	236_T	0.782	0.35
70_L	152_K	0.781	0.35
13_E	16_P	0.773	0.35
187_E	225_F	0.765	0.34
130_K	144_F	0.764	0.34
213_N	219_K	0.764	0.34
52_E	101_P	0.760	0.34
237_A	240_S	0.758	0.34
236_T	239_S	0.757	0.34
30_I	236_T	0.755	0.33
135_A	147_Q	0.750	0.33
246_F	250_K	0.748	0.33
57_T	148_V	0.748	0.33
79_Q	155_E	0.748	0.33
152_K	234_S	0.748	0.33
130_K	166_K	0.747	0.33
213_N	246_F	0.747	0.33
84_V	89_P	0.746	0.33
117_K	160_K	0.744	0.33
98_F	139_R	0.740	0.32
34_A	161_K	0.734	0.32
162_E	245_G	0.734	0.32
36_L	155_E	0.733	0.32
154_Q	167_I	0.733	0.32
253_G	259_K	0.731	0.32
44_K	237_A	0.730	0.32
264_G	267_R	0.725	0.32
22_P	25_P	0.721	0.31
105_F	145_G	0.718	0.31
56_V	213_N	0.716	0.31
78_K	98_F	0.716	0.31
95_G	221_A	0.715	0.31
64_D	87_A	0.715	0.31
81_L	134_E	0.713	0.31
117_K	243_F	0.712	0.31
116_E	119_K	0.709	0.31
54_L	80_A	0.708	0.30
136_R	194_D	0.706	0.30
130_K	134_E	0.703	0.30
6_L	12_G	0.698	0.30
222_K	225_F	0.695	0.30
50_W	126_A	0.694	0.30
192_V	195_A	0.692	0.29
121_K	143_K	0.687	0.29
161_K	240_S	0.686	0.29
215_K	224_G	0.686	0.29
135_A	170_L	0.683	0.29
139_R	170_L	0.681	0.29
40_L	95_G	0.680	0.29
140_E	242_D	0.680	0.29
98_F	156_R	0.677	0.29
8_D	11_D	0.674	0.28
200_K	205_G	0.671	0.28
40_L	68_D	0.670	0.28
38_A	42_R	0.670	0.28
11_D	49_P	0.667	0.28
93_K	254_G	0.667	0.28
41_E	92_K	0.665	0.28
67_N	77_Y	0.665	0.28
68_D	75_A	0.664	0.28
118_I	224_G	0.664	0.28
155_E	216_R	0.663	0.28
174_R	230_R	0.663	0.28
209_K	243_F	0.655	0.27
2_E	111_S	0.650	0.27
75_A	119_K	0.650	0.27
149_Q	224_G	0.650	0.27
74_L	121_K	0.647	0.27
94_L	234_S	0.644	0.27
39_K	53_H	0.642	0.27
126_A	166_K	0.642	0.27
2_E	258_G	0.642	0.27
199_K	210_G	0.638	0.26
94_L	155_E	0.637	0.26
32_N	129_I	0.637	0.26
80_A	87_A	0.633	0.26
244_S	250_K	0.632	0.26
100_R	107_E	0.631	0.26
250_K	253_G	0.630	0.26
120_Q	124_D	0.628	0.26
7_S	151_E	0.625	0.26
233_K	236_T	0.623	0.26
254_G	257_K	0.619	0.25
26_Q	35_A	0.618	0.25
199_K	206_G	0.618	0.25
37_K	94_L	0.617	0.25
68_D	248_A	0.616	0.25
86_E	94_L	0.610	0.25
99_S	102_D	0.606	0.25
135_A	166_K	0.606	0.25
203_K	248_A	0.605	0.25
147_Q	170_L	0.605	0.25
222_K	226_G	0.605	0.25
74_L	144_F	0.604	0.24
137_K	156_R	0.603	0.24
60_P	118_I	0.602	0.24
253_G	260_K	0.601	0.24
54_L	123_L	0.601	0.24
151_E	163_T	0.599	0.24
10_E	102_D	0.597	0.24
202_K	207_G	0.596	0.24
161_K	256_K	0.594	0.24
134_E	180_L	0.592	0.24
252_G	259_K	0.592	0.24
120_Q	261_K	0.592	0.24
124_D	128_A	0.591	0.24
137_K	140_E	0.590	0.24
75_A	81_L	0.589	0.24
225_F	228_K	0.588	0.24
68_D	192_V	0.586	0.24
99_S	105_F	0.586	0.24
105_F	174_R	0.584	0.23
2_E	9_L	0.584	0.23
197_K	202_K	0.583	0.23
180_L	237_A	0.582	0.23
70_L	155_E	0.582	0.23
56_V	96_V	0.581	0.23
136_R	147_Q	0.580	0.23
254_G	260_K	0.580	0.23
93_K	242_D	0.580	0.23
50_W	236_T	0.579	0.23
84_V	263_P	0.578	0.23
14_L	111_S	0.577	0.23
67_N	71_K	0.574	0.23
121_K	158_K	0.572	0.23
53_H	84_V	0.571	0.23
33_K	257_K	0.570	0.23
12_G	18_E	0.565	0.22
59_D	66_V	0.562	0.22
6_L	14_L	0.561	0.22
95_G	171_K	0.559	0.22
98_F	121_K	0.559	0.22
43_I	249_K	0.558	0.22
159_E	172_K	0.553	0.22
136_R	149_Q	0.547	0.22
182_D	210_G	0.547	0.22
100_R	112_D	0.547	0.22
207_G	256_K	0.546	0.22
43_I	165_E	0.545	0.21
236_T	240_S	0.544	0.21
153_L	157_Q	0.543	0.21
19_D	234_S	0.543	0.21
150_V	158_K	0.542	0.21
77_Y	114_H	0.541	0.21
40_L	57_T	0.541	0.21
215_K	267_R	0.536	0.21
73_E	106_A	0.535	0.21
58_S	82_A	0.535	0.21
196_K	202_K	0.534	0.21
252_G	257_K	0.534	0.21
97_P	208_K	0.531	0.21
90_L	123_L	0.528	0.21
31_N	135_A	0.527	0.21
256_K	266_S	0.524	0.20
190_V	218_A	0.523	0.20
143_K	160_K	0.523	0.20
70_L	140_E	0.522	0.20
57_T	138_Q	0.521	0.20
214_K	223_F	0.520	0.20
118_I	211_K	0.518	0.20
166_K	174_R	0.516	0.20
246_F	249_K	0.513	0.20
119_K	128_A	0.511	0.20
222_K	227_G	0.510	0.20
59_D	148_V	0.509	0.20
105_F	211_K	0.507	0.20
153_L	211_K	0.505	0.20
3_D	159_E	0.505	0.20
145_G	151_E	0.503	0.19
23_H	263_P	0.502	0.19
27_K	246_F	0.500	0.19
149_Q	219_K	0.500	0.19

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
2l3oA	1	0.3545	29.9	0.962	Contact Map
2r6aC	1	0.4776	8.7	0.97	Contact Map
2ffsA	2	0.347	6.4	0.972	Contact Map
1jliA	1	0.3134	6.2	0.972	Contact Map
1lv4A	1	0.0784	4.8	0.973	Contact Map
2xz3A	3	0.3694	4.3	0.974	Contact Map
1jg7A	1	0.2873	3.8	0.975	Contact Map
3j20B	1	0.3657	3.3	0.975	Contact Map
4kblA	2	0.0037	3.1	0.976	Contact Map
4uabA	2	0.3172	3	0.976	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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