RS2 - BACSU - GREMLIN Contacts

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RS2 - 30S ribosomal protein S2

UniProt:	P21464	Sequences: MSVISMKQLLEAGVHFGHQTRRWNPKMKRYIFTERNGIYIIDLQKTVKKVEEAYNFTKNLAAEGGKILFVGTKKQAQDSVKEEAQRSGMYYVNQRWLGGTLTNFETIQKRIKRLKDIEKMQENGTFDVLPKKEVVQLKKELERLEKFLGGIKDMKDLPDALFIIDPRKERIAVAEARKLNIPIIGIVDTNCDPDEIDVVIPANDDAIRAVKLLTSKMADAILEAKQGEEEAEVAEETAPETETTTA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	246 (229)
Sequences:	2233 (909)
Seq/√Len:	60.0

ECOLI - RS2
BACSU - RS2
HALSA - RS2
SULSO - RS2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
81_K	85_Q	4.433	1.00
65_G	159_D	4.050	1.00
92_V	100_T	3.247	1.00
83_E	86_R	3.192	1.00
186_I	202_A	3.107	1.00
162_F	217_M	3.059	1.00
57_T	217_M	3.015	1.00
49_K	52_E	2.985	1.00
56_F	184_I	2.867	1.00
118_E	152_K	2.770	1.00
113_R	140_E	2.754	1.00
31_I	189_T	2.638	1.00
83_E	215_S	2.594	1.00
121_Q	138_K	2.567	1.00
220_A	224_A	2.496	1.00
60_L	160_A	2.488	1.00
119_K	123_N	2.462	1.00
145_E	149_G	2.329	1.00
177_R	195_E	2.328	1.00
61_A	67_I	2.322	1.00
163_I	183_I	2.319	1.00
57_T	184_I	2.302	1.00
161_L	176_A	2.298	1.00
86_R	219_D	2.204	1.00
87_S	221_I	2.145	1.00
124_G	127_D	2.124	1.00
60_L	65_G	2.072	1.00
118_E	141_L	2.020	1.00
26_K	194_D	1.973	1.00
160_A	184_I	1.954	1.00
186_I	213_L	1.892	1.00
50_V	216_K	1.834	1.00
121_Q	126_F	1.820	1.00
76_A	210_V	1.802	1.00
14_V	202_A	1.772	0.99
56_F	160_A	1.759	0.99
41_I	189_T	1.753	0.99
60_L	184_I	1.746	0.99
141_L	145_E	1.713	0.99
58_K	223_E	1.690	0.99
121_Q	141_L	1.689	0.99
54_Y	220_A	1.679	0.99
42_D	45_K	1.673	0.99
174_A	178_K	1.672	0.99
187_V	199_V	1.666	0.99
9_L	14_V	1.641	0.99
177_R	197_D	1.621	0.99
79_S	83_E	1.588	0.99
126_F	129_L	1.546	0.98
162_F	214_T	1.492	0.98
126_F	134_V	1.486	0.98
117_I	137_L	1.464	0.98
121_Q	124_G	1.447	0.98
115_K	153_D	1.447	0.98
94_Q	147_F	1.440	0.98
14_V	209_A	1.424	0.97
86_R	222_L	1.394	0.97
164_I	186_I	1.376	0.97
24_N	192_D	1.361	0.96
170_R	174_A	1.359	0.96
10_L	14_V	1.354	0.96
13_G	16_F	1.351	0.96
4_I	50_V	1.342	0.96
215_S	219_D	1.340	0.96
18_H	205_D	1.319	0.96
138_K	142_E	1.319	0.96
177_R	183_I	1.317	0.96
185_G	196_I	1.311	0.96
115_K	152_K	1.300	0.95
118_E	145_E	1.274	0.95
3_V	54_Y	1.259	0.95
94_Q	146_K	1.247	0.94
135_V	139_K	1.238	0.94
56_F	60_L	1.236	0.94
173_V	196_I	1.236	0.94
188_D	205_D	1.234	0.94
23_W	39_Y	1.225	0.94
30_Y	49_K	1.220	0.94
49_K	201_P	1.195	0.93
52_E	55_N	1.183	0.93
105_E	109_K	1.182	0.92
61_A	221_I	1.172	0.92
66_K	159_D	1.171	0.92
157_L	181_I	1.160	0.92
166_P	196_I	1.149	0.91
167_R	191_C	1.145	0.91
59_N	63_E	1.141	0.91
129_L	137_L	1.139	0.91
56_F	198_V	1.130	0.91
145_E	152_K	1.123	0.90
83_E	218_A	1.114	0.90
112_K	116_D	1.110	0.90
54_Y	217_M	1.106	0.90
66_K	90_Y	1.082	0.89
138_K	141_L	1.081	0.89
159_D	182_P	1.080	0.89
26_K	192_D	1.077	0.88
104_F	156_D	1.074	0.88
136_Q	139_K	1.073	0.88
176_A	183_I	1.072	0.88
20_T	34_E	1.071	0.88
73_K	76_A	1.068	0.88
8_Q	216_K	1.051	0.87
61_A	225_K	1.046	0.87
82_E	211_K	1.046	0.87
117_I	141_L	1.036	0.86
45_K	49_K	1.026	0.86
221_I	225_K	1.025	0.86
77_Q	104_F	1.018	0.85
97_L	100_T	1.017	0.85
95_R	98_G	1.015	0.85
81_K	93_N	1.015	0.85
58_K	227_G	1.009	0.85
54_Y	216_K	1.006	0.85
55_N	58_K	0.999	0.84
70_V	161_L	0.997	0.84
170_R	195_E	0.994	0.84
26_K	150_G	0.993	0.84
154_M	157_L	0.983	0.83
187_V	196_I	0.978	0.83
129_L	134_V	0.978	0.83
110_R	113_R	0.965	0.82
130_P	135_V	0.965	0.82
107_I	151_I	0.963	0.82
128_V	134_V	0.961	0.82
9_L	50_V	0.958	0.82
86_R	218_A	0.938	0.80
57_T	221_I	0.924	0.79
77_Q	94_Q	0.922	0.79
30_Y	199_V	0.917	0.79
68_L	161_L	0.910	0.78
125_T	129_L	0.905	0.78
120_M	124_G	0.901	0.78
132_K	136_Q	0.893	0.77
127_D	134_V	0.882	0.76
228_E	231_A	0.875	0.76
83_E	211_K	0.871	0.75
71_G	76_A	0.869	0.75
115_K	155_K	0.868	0.75
163_I	173_V	0.864	0.75
6_M	14_V	0.861	0.74
202_A	209_A	0.856	0.74
18_H	204_D	0.855	0.74
188_D	204_D	0.854	0.74
120_M	129_L	0.851	0.74
211_K	215_S	0.845	0.73
5_S	8_Q	0.845	0.73
101_L	179_L	0.843	0.73
90_Y	166_P	0.842	0.73
134_V	138_K	0.838	0.72
18_H	188_D	0.838	0.72
124_G	134_V	0.836	0.72
87_S	218_A	0.830	0.72
173_V	183_I	0.829	0.72
53_A	199_V	0.823	0.71
73_K	169_E	0.823	0.71
113_R	117_I	0.822	0.71
216_K	219_D	0.816	0.70
60_L	159_D	0.811	0.70
67_I	160_A	0.802	0.69
120_M	125_T	0.802	0.69
126_F	137_L	0.801	0.69
87_S	222_L	0.800	0.69
97_L	148_L	0.794	0.68
66_K	89_M	0.794	0.68
78_D	117_I	0.792	0.68
57_T	67_I	0.791	0.68
50_V	213_L	0.790	0.68
79_S	210_V	0.787	0.68
119_K	122_E	0.783	0.67
5_S	178_K	0.783	0.67
200_I	213_L	0.774	0.66
85_Q	91_Y	0.773	0.66
116_D	120_M	0.767	0.66
58_K	224_A	0.763	0.65
22_R	75_Q	0.762	0.65
67_I	221_I	0.754	0.64
28_K	39_Y	0.754	0.64
222_L	226_Q	0.751	0.64
202_A	213_L	0.744	0.63
57_T	160_A	0.740	0.63
60_L	67_I	0.738	0.63
213_L	217_M	0.732	0.62
62_A	227_G	0.732	0.62
3_V	50_V	0.730	0.62
214_T	217_M	0.726	0.61
125_T	128_V	0.724	0.61
166_P	185_G	0.724	0.61
97_L	106_T	0.722	0.61
226_Q	229_E	0.722	0.61
56_F	59_N	0.721	0.61
61_A	89_M	0.721	0.61
166_P	195_E	0.717	0.60
4_I	216_K	0.716	0.60
83_E	219_D	0.714	0.60
8_Q	11_E	0.700	0.59
183_I	195_E	0.699	0.58
126_F	152_K	0.699	0.58
47_V	186_I	0.698	0.58
187_V	191_C	0.697	0.58
196_I	199_V	0.695	0.58
89_M	225_K	0.693	0.58
184_I	198_V	0.691	0.58
58_K	62_A	0.691	0.58
140_E	167_R	0.685	0.57
24_N	194_D	0.683	0.57
92_V	151_I	0.683	0.57
121_Q	127_D	0.682	0.57
219_D	222_L	0.679	0.56
33_T	50_V	0.678	0.56
80_V	164_I	0.678	0.56
185_G	199_V	0.676	0.56
143_R	147_F	0.670	0.55
79_S	208_R	0.669	0.55
10_L	35_R	0.668	0.55
66_K	225_K	0.667	0.55
7_K	162_F	0.660	0.54
106_T	179_L	0.659	0.54
61_A	159_D	0.659	0.54
22_R	167_R	0.658	0.54
16_F	205_D	0.658	0.54
59_N	62_A	0.646	0.53
120_M	126_F	0.646	0.53
67_I	162_F	0.646	0.53
193_P	205_D	0.645	0.52
38_I	206_A	0.645	0.52
16_F	75_Q	0.644	0.52
85_Q	136_Q	0.642	0.52
200_I	217_M	0.641	0.52
120_M	137_L	0.641	0.52
58_K	226_Q	0.639	0.52
192_D	195_E	0.637	0.52
165_D	168_K	0.636	0.51
81_K	118_E	0.634	0.51
79_S	209_A	0.633	0.51
85_Q	153_D	0.628	0.51
161_L	172_A	0.626	0.50
109_K	148_L	0.624	0.50
51_E	110_R	0.621	0.50
135_V	138_K	0.619	0.50
164_I	169_E	0.616	0.49
114_L	141_L	0.614	0.49
76_A	169_E	0.613	0.49
114_L	152_K	0.611	0.49
113_R	208_R	0.609	0.48
78_D	126_F	0.600	0.47
73_K	165_D	0.600	0.47
108_Q	112_K	0.594	0.47
89_M	104_F	0.592	0.46
130_P	134_V	0.592	0.46
224_A	228_E	0.592	0.46
80_V	226_Q	0.589	0.46
169_E	191_C	0.588	0.46
9_L	212_L	0.586	0.46
97_L	189_T	0.585	0.46
148_L	179_L	0.583	0.45
3_V	51_E	0.583	0.45
195_E	199_V	0.583	0.45
126_F	141_L	0.582	0.45
162_F	213_L	0.582	0.45
90_Y	211_K	0.581	0.45
42_D	75_Q	0.581	0.45
99_G	175_E	0.578	0.45
66_K	156_D	0.576	0.45
155_K	186_I	0.574	0.44
222_L	225_K	0.573	0.44
185_G	210_V	0.572	0.44
104_F	174_A	0.572	0.44
137_L	141_L	0.572	0.44
57_T	162_F	0.571	0.44
107_I	110_R	0.570	0.44
35_R	212_L	0.569	0.44
120_M	134_V	0.568	0.44
19_Q	22_R	0.568	0.44
66_K	155_K	0.566	0.44
90_Y	154_M	0.566	0.44
66_K	88_G	0.565	0.43
43_L	206_A	0.563	0.43
69_F	218_A	0.563	0.43
104_F	160_A	0.563	0.43
110_R	117_I	0.563	0.43
45_K	104_F	0.562	0.43
161_L	177_R	0.561	0.43
113_R	194_D	0.557	0.43
50_V	217_M	0.556	0.43
67_I	89_M	0.553	0.42
127_D	138_K	0.552	0.42
108_Q	111_I	0.552	0.42
130_P	133_E	0.550	0.42
121_Q	128_V	0.550	0.42
168_K	185_G	0.550	0.42
111_I	144_L	0.547	0.42
123_N	126_F	0.546	0.41
108_Q	143_R	0.546	0.41
165_D	185_G	0.544	0.41
130_P	136_Q	0.544	0.41
135_V	167_R	0.544	0.41
139_K	213_L	0.542	0.41
117_I	120_M	0.540	0.41
45_K	77_Q	0.539	0.41
173_V	177_R	0.538	0.41
106_T	118_E	0.538	0.41
69_F	84_A	0.537	0.40
142_E	146_K	0.536	0.40
90_Y	160_A	0.535	0.40
116_D	141_L	0.535	0.40
27_M	39_Y	0.534	0.40
74_K	138_K	0.533	0.40
77_Q	93_N	0.530	0.40
99_G	103_N	0.529	0.40
225_K	228_E	0.529	0.40
54_Y	110_R	0.527	0.39
69_F	89_M	0.527	0.39
122_E	129_L	0.526	0.39
87_S	90_Y	0.525	0.39
7_K	44_Q	0.525	0.39
59_N	185_G	0.523	0.39
61_A	224_A	0.522	0.39
50_V	185_G	0.521	0.39
52_E	59_N	0.520	0.39
130_P	171_I	0.519	0.39
122_E	126_F	0.516	0.38
226_Q	230_E	0.515	0.38
104_F	155_K	0.515	0.38
37_G	75_Q	0.514	0.38
100_T	147_F	0.514	0.38
120_M	123_N	0.513	0.38
135_V	211_K	0.512	0.38
129_L	228_E	0.512	0.38
24_N	106_T	0.512	0.38
35_R	129_L	0.511	0.38
174_A	177_R	0.511	0.38
3_V	12_A	0.510	0.38
177_R	196_I	0.509	0.37
108_Q	168_K	0.507	0.37
9_L	42_D	0.506	0.37
9_L	216_K	0.505	0.37
151_I	154_M	0.504	0.37
128_V	152_K	0.502	0.37
20_T	23_W	0.502	0.37
143_R	173_V	0.501	0.37
97_L	110_R	0.501	0.37
80_V	109_K	0.501	0.37
130_P	138_K	0.500	0.37

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
4rb5B	1	0.939	100	0.099	Contact Map
3bbnB	1	0.939	100	0.114	Contact Map
5aj3B	1	0.7967	100	0.274	Contact Map
4toiA	2	0.9837	100	0.292	Contact Map
4ujpB	1	0.7602	100	0.301	Contact Map
3j7aC	1	0.748	100	0.302	Contact Map
3zeyC	1	0.7439	100	0.303	Contact Map
4bpeB	1	0.7561	100	0.307	Contact Map
3j38A	1	0.8008	100	0.31	Contact Map
3j60A	1	0.7439	100	0.313	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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