RS2 - ECOLI - GREMLIN Contacts

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RS2 - 30S ribosomal protein S2

UniProt:	P0A7V0	Sequences: MATVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRSQDLASQAEESFVEAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10901
Length:	241 (227)
Sequences:	2198 (888)
Seq/√Len:	58.9

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_L	4.246	1.00
65_G	159_D	3.937	1.00
92_V	100_M	3.249	1.00
186_I	202_G	3.085	1.00
83_A	86_S	3.062	1.00
162_F	217_V	2.998	1.00
49_M	52_E	2.987	1.00
57_L	217_V	2.863	1.00
56_E	184_F	2.787	1.00
31_I	189_T	2.760	1.00
113_R	140_E	2.713	1.00
220_T	224_G	2.661	1.00
119_T	123_D	2.587	1.00
61_A	67_I	2.513	1.00
83_A	215_G	2.503	1.00
118_E	152_K	2.458	1.00
145_E	149_G	2.454	1.00
161_L	176_A	2.451	1.00
60_I	160_A	2.391	1.00
121_S	138_T	2.362	1.00
57_L	184_F	2.275	1.00
163_V	183_V	2.217	1.00
86_S	219_A	2.182	1.00
177_N	195_G	2.178	1.00
60_I	65_G	2.045	1.00
87_C	221_V	1.988	1.00
118_E	141_L	1.965	1.00
26_K	194_D	1.960	1.00
160_A	184_F	1.956	1.00
121_S	126_F	1.938	1.00
14_V	202_G	1.915	1.00
186_I	213_Y	1.891	1.00
50_F	216_A	1.852	1.00
141_L	145_E	1.750	0.99
124_G	127_D	1.748	0.99
41_I	189_T	1.744	0.99
58_N	223_E	1.739	0.99
76_A	210_V	1.736	0.99
60_I	184_F	1.718	0.99
56_E	160_A	1.716	0.99
54_L	220_T	1.716	0.99
126_F	134_A	1.710	0.99
121_S	141_L	1.699	0.99
177_N	197_D	1.693	0.99
9_M	14_V	1.648	0.99
187_V	199_V	1.638	0.99
174_K	178_N	1.626	0.99
42_N	45_K	1.618	0.99
79_A	83_A	1.565	0.98
14_V	209_A	1.554	0.98
86_S	222_R	1.511	0.98
126_F	129_L	1.499	0.98
162_F	214_L	1.470	0.98
117_L	137_R	1.401	0.97
115_K	153_D	1.392	0.97
13_G	16_F	1.379	0.97
23_W	39_H	1.372	0.96
94_H	147_S	1.372	0.96
4_V	50_F	1.360	0.96
170_H	174_K	1.345	0.96
135_L	139_R	1.343	0.96
215_G	219_A	1.339	0.96
118_E	145_E	1.315	0.95
185_A	196_V	1.313	0.95
94_H	146_N	1.290	0.95
10_L	14_V	1.281	0.95
24_N	192_D	1.271	0.95
177_N	183_V	1.261	0.94
159_D	182_P	1.252	0.94
120_Q	124_G	1.241	0.94
164_I	186_I	1.234	0.94
188_D	205_D	1.226	0.93
18_H	205_D	1.225	0.93
157_L	181_I	1.222	0.93
138_T	142_E	1.219	0.93
115_K	152_K	1.200	0.93
30_F	49_M	1.187	0.92
105_K	109_Q	1.186	0.92
3_T	54_L	1.185	0.92
167_D	191_S	1.174	0.92
130_T	135_L	1.173	0.92
83_A	218_A	1.173	0.92
56_E	198_F	1.171	0.92
66_K	90_F	1.156	0.91
56_E	60_I	1.156	0.91
104_W	156_G	1.155	0.91
166_A	196_V	1.151	0.91
129_L	137_R	1.151	0.91
54_L	217_V	1.139	0.91
61_A	221_V	1.135	0.90
73_K	76_A	1.132	0.90
112_K	116_D	1.116	0.90
52_E	55_A	1.116	0.90
66_K	159_D	1.115	0.90
136_M	139_R	1.113	0.90
221_V	225_R	1.113	0.90
20_T	34_A	1.113	0.90
58_N	227_Q	1.108	0.89
59_K	63_R	1.104	0.89
45_K	49_M	1.089	0.89
77_S	104_W	1.081	0.88
187_V	196_V	1.080	0.88
117_L	141_L	1.079	0.88
145_E	152_K	1.072	0.88
54_L	216_A	1.063	0.87
9_M	50_F	1.059	0.87
176_A	183_V	1.054	0.87
110_S	113_R	1.050	0.87
70_V	161_L	1.047	0.87
86_S	218_A	1.042	0.86
49_M	201_P	1.041	0.86
77_S	94_H	1.040	0.86
8_D	216_A	1.033	0.86
173_I	196_V	1.023	0.85
121_S	124_G	1.015	0.85
82_D	211_T	1.013	0.85
202_G	209_A	1.002	0.84
81_K	93_N	1.000	0.84
138_T	141_L	0.967	0.82
55_A	58_N	0.965	0.82
26_K	150_G	0.964	0.82
173_I	183_V	0.956	0.81
90_F	166_A	0.954	0.81
61_A	225_R	0.934	0.80
26_K	192_D	0.933	0.79
127_D	134_A	0.926	0.79
57_L	221_V	0.924	0.79
154_M	157_L	0.910	0.78
120_Q	126_F	0.906	0.77
62_S	227_Q	0.900	0.77
30_F	199_V	0.897	0.77
120_Q	129_L	0.897	0.77
124_G	128_K	0.895	0.77
87_C	222_R	0.883	0.76
97_L	100_M	0.879	0.75
113_R	117_L	0.876	0.75
68_L	161_L	0.863	0.74
53_A	199_V	0.863	0.74
5_S	8_D	0.860	0.74
115_K	155_G	0.858	0.73
95_R	98_G	0.856	0.73
202_G	213_Y	0.847	0.72
67_I	160_A	0.846	0.72
22_Y	75_A	0.846	0.72
71_G	76_A	0.844	0.72
132_K	136_M	0.843	0.72
6_M	14_V	0.842	0.72
107_V	151_I	0.836	0.71
200_I	213_Y	0.834	0.71
5_S	178_N	0.829	0.71
123_D	126_F	0.814	0.69
188_D	204_D	0.814	0.69
184_F	198_F	0.811	0.69
97_L	148_L	0.804	0.69
170_H	195_G	0.801	0.68
18_H	204_D	0.793	0.67
126_F	137_R	0.788	0.67
60_I	159_D	0.787	0.67
120_Q	125_T	0.787	0.67
83_A	211_T	0.787	0.67
216_A	219_A	0.786	0.67
85_L	91_F	0.786	0.67
143_K	147_S	0.783	0.66
79_A	210_V	0.781	0.66
211_T	215_G	0.774	0.66
128_K	134_A	0.773	0.65
18_H	188_D	0.771	0.65
187_V	191_S	0.769	0.65
124_G	134_A	0.767	0.65
70_V	181_I	0.765	0.65
101_L	179_L	0.758	0.64
73_K	165_D	0.747	0.63
10_L	35_R	0.747	0.63
60_I	67_I	0.747	0.63
116_D	120_Q	0.747	0.63
79_A	209_A	0.745	0.63
78_E	117_L	0.742	0.62
42_N	75_A	0.740	0.62
83_A	219_A	0.735	0.62
129_L	134_A	0.729	0.61
219_A	222_R	0.727	0.61
56_E	59_K	0.726	0.61
166_A	185_A	0.722	0.60
87_C	218_A	0.716	0.60
213_Y	217_V	0.714	0.59
58_N	224_G	0.714	0.59
73_K	169_E	0.713	0.59
165_D	168_H	0.712	0.59
107_V	110_S	0.712	0.59
33_G	50_F	0.709	0.59
28_K	39_H	0.709	0.59
134_A	138_T	0.709	0.59
50_F	213_Y	0.708	0.59
4_V	216_A	0.706	0.58
66_K	89_Q	0.705	0.58
74_R	138_T	0.705	0.58
57_L	160_A	0.703	0.58
183_V	195_G	0.703	0.58
67_I	221_V	0.702	0.58
97_L	189_T	0.702	0.58
57_L	67_I	0.698	0.58
222_R	226_S	0.696	0.57
114_L	152_K	0.694	0.57
106_T	179_L	0.693	0.57
196_V	199_V	0.690	0.57
3_T	50_F	0.686	0.56
126_F	152_K	0.685	0.56
226_S	229_L	0.682	0.56
113_R	208_R	0.681	0.56
185_A	210_V	0.677	0.55
130_T	133_E	0.675	0.55
89_Q	225_R	0.674	0.55
97_L	106_T	0.671	0.55
3_T	51_N	0.669	0.54
166_A	195_G	0.669	0.54
193_P	205_D	0.667	0.54
16_F	75_A	0.665	0.54
140_E	167_D	0.664	0.54
161_L	172_A	0.662	0.54
61_A	89_Q	0.658	0.53
59_K	62_S	0.657	0.53
80_V	226_S	0.654	0.53
7_R	162_F	0.653	0.53
47_V	186_I	0.653	0.53
214_L	217_V	0.650	0.52
58_N	226_S	0.650	0.52
224_G	228_D	0.644	0.52
192_D	195_G	0.643	0.52
58_N	62_S	0.642	0.51
79_A	208_R	0.640	0.51
163_V	173_I	0.639	0.51
66_K	156_G	0.636	0.51
164_I	169_E	0.634	0.51
135_L	211_T	0.630	0.50
59_K	224_G	0.628	0.50
168_H	185_A	0.623	0.49
125_T	128_K	0.622	0.49
61_A	159_D	0.621	0.49
69_F	218_A	0.620	0.49
38_V	206_A	0.619	0.49
50_F	217_V	0.618	0.49
225_R	228_D	0.617	0.49
57_L	162_F	0.615	0.48
89_Q	104_W	0.615	0.48
8_D	11_K	0.613	0.48
92_V	151_I	0.613	0.48
125_T	129_L	0.612	0.48
45_K	104_W	0.611	0.48
110_S	117_L	0.610	0.48
76_A	169_E	0.609	0.48
66_K	184_F	0.609	0.48
67_I	162_F	0.603	0.47
69_F	84_A	0.601	0.47
16_F	205_D	0.599	0.47
130_T	136_M	0.597	0.46
135_L	138_T	0.594	0.46
63_R	127_D	0.594	0.46
20_T	23_W	0.592	0.46
22_Y	167_D	0.591	0.46
117_L	120_Q	0.591	0.46
195_G	199_V	0.587	0.45
99_G	158_P	0.583	0.45
130_T	134_A	0.583	0.45
151_I	154_M	0.582	0.45
87_C	90_F	0.581	0.45
66_K	225_R	0.581	0.45
183_V	196_V	0.579	0.44
185_A	199_V	0.577	0.44
114_L	141_L	0.576	0.44
80_V	164_I	0.574	0.44
169_E	191_S	0.573	0.44
119_T	122_Q	0.572	0.44
23_W	27_M	0.571	0.44
50_F	186_I	0.571	0.44
200_I	217_V	0.570	0.43
104_W	160_A	0.570	0.43
33_G	227_Q	0.569	0.43
106_T	118_E	0.568	0.43
108_R	111_I	0.566	0.43
35_R	212_L	0.565	0.43
90_F	211_T	0.565	0.43
8_D	209_A	0.564	0.43
24_N	194_D	0.563	0.43
27_M	39_H	0.561	0.42
148_L	179_L	0.558	0.42
117_L	207_I	0.557	0.42
121_S	128_K	0.556	0.42
155_G	186_I	0.555	0.42
222_R	225_R	0.554	0.42
126_F	141_L	0.550	0.41
114_L	117_L	0.550	0.41
107_V	221_V	0.547	0.41
104_W	174_K	0.547	0.41
81_K	118_E	0.547	0.41
162_F	213_Y	0.546	0.41
164_I	210_V	0.545	0.41
123_D	159_D	0.543	0.40
49_M	161_L	0.539	0.40
5_S	173_I	0.536	0.40
104_W	155_G	0.536	0.40
99_G	175_E	0.533	0.39
141_L	152_K	0.533	0.39
177_N	196_V	0.532	0.39
90_F	154_M	0.531	0.39
121_S	129_L	0.529	0.39
90_F	160_A	0.529	0.39
165_D	185_A	0.528	0.39
110_S	165_D	0.528	0.39
108_R	143_K	0.527	0.39
180_G	183_V	0.526	0.39
80_V	109_Q	0.526	0.39
109_Q	148_L	0.524	0.38
170_H	173_I	0.524	0.38
10_L	16_F	0.522	0.38
8_D	12_A	0.522	0.38
122_Q	129_L	0.522	0.38
108_R	112_K	0.520	0.38
43_L	206_A	0.519	0.38
61_A	224_G	0.519	0.38
180_G	202_G	0.517	0.38
58_N	78_E	0.513	0.37
39_H	92_V	0.510	0.37
64_K	228_D	0.510	0.37
45_K	77_S	0.510	0.37
120_Q	137_R	0.510	0.37
77_S	93_N	0.509	0.37
173_I	187_V	0.509	0.37
142_E	146_N	0.508	0.37
105_K	135_L	0.508	0.37
112_K	115_K	0.508	0.37
31_I	34_A	0.508	0.37
51_N	80_V	0.508	0.37
7_R	44_E	0.505	0.36
3_T	12_A	0.504	0.36
65_G	130_T	0.504	0.36
108_R	196_V	0.504	0.36
135_L	167_D	0.504	0.36
34_A	65_G	0.503	0.36
94_H	156_G	0.501	0.36
134_A	141_L	0.500	0.36

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	0.9585	100	0.093	Contact Map
3bbnB	1	0.9585	100	0.109	Contact Map
5aj3B	1	0.8091	100	0.269	Contact Map
4toiA	2	0.9917	100	0.281	Contact Map
3j7aC	1	0.751	100	0.295	Contact Map
3zeyC	1	0.7552	100	0.296	Contact Map
4ujpB	1	0.7593	100	0.298	Contact Map
4bpeB	1	0.751	100	0.299	Contact Map
3j38A	1	0.7967	100	0.304	Contact Map
3j60A	1	0.7552	100	0.304	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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