RL2 - SULSO - GREMLIN Contacts

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RL2 - 50S ribosomal protein L2

UniProt:	Q9UXA5	Sequences: MGKNLLQQRAGKGSPTFRNPGWLRIGKVRYPNIFGHFIGKVIDIVHNPGMNAPVALVKLENGTKFLMQAIQGLVVNQKIEFGKGSPIANGNVIEIGDAPEGTIVCNVEENFGDGGKYARSAGSYAVVVGKSGDRVLIRLPSDKIKAVSNKARATVGIVAGGGVIEKPLLKAGANYWKYKVKAKKWPIVRGVAMNVVDHPHGGGLHQSVSRPSTVSRNAPPGRKVGHIAARRTGRKEGK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	238 (226)
Sequences:	2512 (967)
Seq/√Len:	64.3

ECOLI - RL2
BACSU - RL2
HALSA - RL2
SULSO - RL2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
39_G	57_V	3.355	1.00
113_D	116_K	3.255	1.00
35_G	152_R	3.198	1.00
42_I	58_K	3.066	1.00
135_V	149_N	2.872	1.00
127_V	135_V	2.781	1.00
19_N	187_I	2.643	1.00
106_N	115_G	2.582	1.00
191_V	208_V	2.529	1.00
104_V	137_I	2.506	1.00
104_V	127_V	2.483	1.00
102_T	155_V	2.435	1.00
118_A	125_A	2.434	1.00
71_Q	161_G	2.380	1.00
96_G	150_K	2.360	1.00
229_A	232_T	2.303	1.00
184_K	187_I	2.299	1.00
24_R	176_W	2.264	1.00
137_I	147_V	2.243	1.00
107_V	125_A	2.227	1.00
208_V	211_P	2.084	1.00
51_N	163_V	2.064	1.00
157_I	161_G	1.988	1.00
57_V	79_I	1.946	1.00
34_F	61_N	1.936	1.00
10_A	16_T	1.931	1.00
168_L	174_N	1.883	1.00
136_L	144_I	1.871	1.00
92_V	152_R	1.868	1.00
73_L	79_I	1.782	1.00
20_P	184_K	1.777	1.00
74_V	77_Q	1.775	1.00
41_V	73_L	1.764	1.00
220_P	224_V	1.745	1.00
58_K	64_K	1.743	1.00
191_V	207_S	1.711	0.99
33_I	65_F	1.695	0.99
211_P	214_V	1.691	0.99
208_V	222_R	1.682	0.99
68_Q	115_G	1.670	0.99
98_A	155_V	1.613	0.99
94_E	97_D	1.603	0.99
77_Q	88_A	1.599	0.99
34_F	63_T	1.597	0.99
71_Q	157_I	1.570	0.99
70_I	73_L	1.563	0.99
38_I	78_K	1.558	0.99
208_V	212_S	1.556	0.99
215_S	219_P	1.554	0.99
53_P	159_A	1.548	0.99
55_A	69_A	1.519	0.99
108_E	114_G	1.517	0.99
129_G	136_L	1.515	0.99
52_A	158_V	1.508	0.99
36_H	84_G	1.492	0.98
82_G	85_S	1.486	0.98
117_Y	147_V	1.478	0.98
40_K	58_K	1.470	0.98
17_F	187_I	1.457	0.98
107_V	137_I	1.453	0.98
134_R	148_S	1.451	0.98
228_A	234_R	1.444	0.98
219_P	224_V	1.441	0.98
221_G	224_V	1.422	0.98
174_N	177_K	1.415	0.98
130_K	149_N	1.406	0.98
38_I	60_E	1.394	0.98
200_H	214_V	1.392	0.98
35_G	82_G	1.378	0.97
168_L	177_K	1.373	0.97
35_G	81_F	1.370	0.97
229_A	234_R	1.351	0.97
6_L	20_P	1.349	0.97
36_H	82_G	1.344	0.97
41_V	57_V	1.336	0.97
85_S	93_I	1.334	0.97
40_K	78_K	1.326	0.97
200_H	208_V	1.326	0.97
96_G	149_N	1.323	0.97
93_I	98_A	1.311	0.96
42_I	64_K	1.308	0.96
133_D	148_S	1.301	0.96
109_E	117_Y	1.285	0.96
71_Q	159_A	1.274	0.96
111_F	148_S	1.225	0.95
223_K	226_H	1.218	0.95
207_S	211_P	1.217	0.95
231_R	234_R	1.211	0.94
103_I	124_Y	1.199	0.94
136_L	146_A	1.188	0.94
55_A	73_L	1.188	0.94
20_P	187_I	1.187	0.94
194_N	197_D	1.167	0.93
70_I	105_C	1.159	0.93
162_G	165_E	1.147	0.93
229_A	233_G	1.146	0.93
34_F	37_F	1.145	0.93
188_V	192_A	1.142	0.93
230_R	233_G	1.140	0.92
117_Y	139_L	1.128	0.92
230_R	234_R	1.107	0.91
207_S	210_R	1.101	0.91
173_A	177_K	1.093	0.91
210_R	214_V	1.093	0.91
191_V	210_R	1.083	0.90
19_N	184_K	1.072	0.90
110_N	113_D	1.070	0.90
109_E	147_V	1.067	0.90
92_V	154_T	1.052	0.89
98_A	153_A	1.047	0.89
4_N	7_Q	1.045	0.89
84_G	97_D	1.041	0.89
200_H	221_G	1.026	0.88
40_K	60_E	1.012	0.87
215_S	222_R	1.011	0.87
43_D	75_V	1.007	0.87
187_I	200_H	1.004	0.87
98_A	127_V	1.003	0.87
212_S	222_R	0.998	0.86
43_D	55_A	0.993	0.86
133_D	149_N	0.985	0.86
17_F	20_P	0.981	0.85
130_K	135_V	0.970	0.85
56_L	66_L	0.967	0.85
18_R	193_M	0.967	0.85
228_A	231_R	0.963	0.84
211_P	221_G	0.963	0.84
219_P	222_R	0.944	0.83
68_Q	158_V	0.940	0.83
166_K	173_A	0.935	0.83
195_V	204_L	0.933	0.82
19_N	188_V	0.923	0.82
47_N	50_M	0.921	0.82
56_L	64_K	0.920	0.82
210_R	222_R	0.914	0.81
191_V	212_S	0.909	0.81
174_N	184_K	0.909	0.81
204_L	208_V	0.906	0.81
28_V	54_V	0.905	0.80
211_P	222_R	0.904	0.80
37_F	60_E	0.899	0.80
43_D	56_L	0.887	0.79
37_F	63_T	0.886	0.79
68_Q	106_N	0.886	0.79
44_I	53_P	0.880	0.79
168_L	173_A	0.864	0.77
51_N	69_A	0.862	0.77
26_G	29_R	0.859	0.77
105_C	154_T	0.848	0.76
80_E	86_P	0.842	0.75
190_G	200_H	0.836	0.75
43_D	64_K	0.832	0.75
215_S	221_G	0.832	0.75
126_V	138_R	0.830	0.74
15_P	19_N	0.823	0.74
42_I	57_V	0.823	0.74
43_D	159_A	0.821	0.74
189_R	192_A	0.811	0.73
81_F	92_V	0.811	0.73
203_G	206_Q	0.811	0.73
118_A	137_I	0.806	0.72
107_V	118_A	0.804	0.72
19_N	193_M	0.804	0.72
127_V	149_N	0.797	0.71
215_S	220_P	0.792	0.71
7_Q	20_P	0.792	0.71
84_G	93_I	0.789	0.71
216_R	228_A	0.788	0.70
214_V	220_P	0.785	0.70
82_G	152_R	0.783	0.70
223_K	227_I	0.782	0.70
73_L	105_C	0.779	0.70
34_F	59_L	0.778	0.69
45_V	66_L	0.775	0.69
200_H	222_R	0.774	0.69
57_V	65_F	0.773	0.69
44_I	54_V	0.773	0.69
20_P	23_L	0.770	0.69
196_V	222_R	0.768	0.69
19_N	185_W	0.763	0.68
39_G	65_F	0.762	0.68
193_M	197_D	0.758	0.67
72_G	142_D	0.749	0.67
95_I	137_I	0.745	0.66
39_G	59_L	0.744	0.66
38_I	80_E	0.739	0.66
67_M	70_I	0.735	0.65
83_K	97_D	0.723	0.64
73_L	89_N	0.723	0.64
28_V	43_D	0.722	0.64
53_P	140_P	0.721	0.64
108_E	112_G	0.721	0.64
10_A	14_S	0.720	0.64
118_A	140_P	0.719	0.63
39_G	79_I	0.717	0.63
67_M	105_C	0.714	0.63
105_C	158_V	0.714	0.63
62_G	114_G	0.713	0.63
208_V	215_S	0.707	0.62
44_I	55_A	0.707	0.62
200_H	215_S	0.706	0.62
118_A	123_S	0.699	0.61
191_V	211_P	0.694	0.61
15_P	188_V	0.692	0.60
43_D	53_P	0.690	0.60
207_S	214_V	0.690	0.60
71_Q	165_E	0.687	0.60
124_Y	157_I	0.685	0.60
87_I	93_I	0.684	0.60
48_P	119_R	0.683	0.59
227_I	233_G	0.678	0.59
104_V	107_V	0.670	0.58
75_V	128_V	0.668	0.58
86_P	152_R	0.667	0.58
195_V	214_V	0.666	0.58
6_L	17_F	0.665	0.57
161_G	164_I	0.664	0.57
7_Q	23_L	0.661	0.57
83_K	96_G	0.660	0.57
36_H	80_E	0.657	0.56
17_F	188_V	0.657	0.56
106_N	154_T	0.654	0.56
86_P	164_I	0.653	0.56
104_V	125_A	0.653	0.56
196_V	210_R	0.649	0.56
196_V	212_S	0.648	0.55
196_V	208_V	0.646	0.55
210_R	221_G	0.646	0.55
81_F	152_R	0.645	0.55
228_A	232_T	0.640	0.55
45_V	54_V	0.638	0.54
192_A	214_V	0.637	0.54
5_L	20_P	0.636	0.54
103_I	157_I	0.635	0.54
214_V	221_G	0.634	0.54
87_I	155_V	0.632	0.54
191_V	214_V	0.632	0.54
53_P	71_Q	0.627	0.53
57_V	159_A	0.624	0.53
83_K	94_E	0.624	0.53
125_A	137_I	0.622	0.52
120_S	123_S	0.621	0.52
224_V	229_A	0.619	0.52
187_I	216_R	0.611	0.51
82_G	93_I	0.610	0.51
9_R	13_G	0.610	0.51
121_A	163_V	0.607	0.51
37_F	59_L	0.605	0.50
169_L	173_A	0.604	0.50
167_P	206_Q	0.600	0.50
69_A	159_A	0.592	0.49
109_E	137_I	0.589	0.49
138_R	225_G	0.588	0.48
53_P	162_G	0.587	0.48
203_G	208_V	0.585	0.48
94_E	150_K	0.582	0.48
100_E	129_G	0.582	0.48
168_L	192_A	0.581	0.48
15_P	187_I	0.581	0.48
129_G	140_P	0.581	0.48
85_S	97_D	0.581	0.48
51_N	159_A	0.580	0.48
159_A	164_I	0.580	0.48
95_I	127_V	0.578	0.47
19_N	216_R	0.577	0.47
33_I	63_T	0.577	0.47
34_F	62_G	0.576	0.47
191_V	203_G	0.576	0.47
7_Q	17_F	0.576	0.47
16_T	111_F	0.575	0.47
218_A	222_R	0.575	0.47
53_P	166_K	0.573	0.47
11_G	14_S	0.573	0.47
17_F	53_P	0.573	0.47
26_G	47_N	0.572	0.47
44_I	64_K	0.569	0.46
224_V	232_T	0.568	0.46
127_V	130_K	0.566	0.46
36_H	83_K	0.564	0.46
43_D	140_P	0.564	0.46
96_G	135_V	0.559	0.45
83_K	93_I	0.559	0.45
100_E	225_G	0.558	0.45
109_E	151_A	0.556	0.45
200_H	213_T	0.555	0.45
212_S	221_G	0.553	0.44
60_E	65_F	0.553	0.44
29_R	32_N	0.553	0.44
195_V	209_S	0.552	0.44
140_P	165_E	0.552	0.44
131_S	144_I	0.551	0.44
212_S	224_V	0.549	0.44
106_N	129_G	0.549	0.44
26_G	30_Y	0.548	0.44
211_P	220_P	0.547	0.44
43_D	58_K	0.546	0.44
167_P	224_V	0.546	0.44
32_N	105_C	0.546	0.44
60_E	78_K	0.546	0.44
135_V	147_V	0.544	0.43
130_K	138_R	0.544	0.43
124_Y	161_G	0.544	0.43
208_V	221_G	0.542	0.43
192_A	203_G	0.542	0.43
121_A	169_L	0.541	0.43
216_R	221_G	0.541	0.43
11_G	17_F	0.541	0.43
198_H	201_G	0.539	0.43
108_E	151_A	0.537	0.43
95_I	103_I	0.534	0.42
217_N	221_G	0.533	0.42
191_V	222_R	0.531	0.42
196_V	214_V	0.530	0.42
37_F	80_E	0.529	0.42
128_V	142_D	0.528	0.42
115_G	154_T	0.526	0.41
100_E	130_K	0.524	0.41
104_V	135_V	0.524	0.41
107_V	147_V	0.523	0.41
32_N	92_V	0.522	0.41
75_V	84_G	0.521	0.41
59_L	62_G	0.519	0.41
129_G	132_G	0.517	0.40
26_G	48_P	0.517	0.40
45_V	48_P	0.516	0.40
51_N	166_K	0.515	0.40
44_I	69_A	0.514	0.40
134_R	146_A	0.514	0.40
129_G	213_T	0.513	0.40
68_Q	105_C	0.513	0.40
43_D	54_V	0.511	0.40
19_N	217_N	0.511	0.40
80_E	85_S	0.511	0.40
83_K	152_R	0.510	0.40
18_R	215_S	0.509	0.39
131_S	140_P	0.503	0.39
103_I	126_V	0.503	0.39
129_G	144_I	0.503	0.39
74_V	79_I	0.500	0.38

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
4rb6D	1	0.979	100	0.062	Contact Map
4tp9C	1	0.0084	100	0.062	Contact Map
1vw3B	1	0.9706	100	0.068	Contact Map
1vq8A	1	0.9664	100	0.069	Contact Map
3j3wC	1	0.979	100	0.074	Contact Map
3bboE	1	0.9706	100	0.074	Contact Map
3j21B	1	0.9748	100	0.078	Contact Map
3zf7e	1	0.7395	100	0.084	Contact Map
3j61A	1	1	100	0.084	Contact Map
4a17A	2	0.9958	100	0.085	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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