RSMI - BACSU - GREMLIN Contacts

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RSMI - Ribosomal RNA small subunit methyltransferase I

UniProt:	P37544	Sequences: MLRRQMSFNGKSDMGILYLVPTPIGNLEDMTFRAIDTLKSVDAIAAEDTRQTKKLCHVYEIETPLVSYHEHNKESSGHKIIEWLKSGKNIALVSDAGLPTISDPGAEIVKDFTDIGGYVVPLPGANAALTALIASGIVPQPFFFYGFLNRQKKEKKKELEALKKRQETIIFYEAPHRLKETLSAMAEILGDREIAVTRELTKKYEEFIRGTISEVIGWANEDQIRGEFCLVVEGSNNEEVDEEEQWWETLTAKEHVEHYISKGATSKEAIKKAAVDRNVPKREVYDAYHIKQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	292 (269)
Sequences:	3908 (2649)
Seq/√Len:	161.5

ECOLI - RSMI
BACSU - RSMI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
52_T	93_V	4.349	1.00
28_E	36_D	3.827	1.00
83_W	88_K	3.557	1.00
193_E	233_E	3.148	1.00
85_K	115_I	3.105	1.00
21_P	122_L	2.674	1.00
32_F	35_I	2.674	1.00
36_D	40_S	2.670	1.00
155_K	184_A	2.612	1.00
194_I	215_V	2.503	1.00
194_I	212_I	2.426	1.00
113_T	209_R	2.418	1.00
134_A	207_F	2.195	1.00
185_M	212_I	2.188	1.00
53_K	57_H	2.167	1.00
30_M	35_I	2.096	1.00
35_I	59_Y	1.973	1.00
111_D	114_D	1.949	1.00
42_D	89_N	1.912	1.00
85_K	117_G	1.864	1.00
148_L	158_E	1.862	1.00
198_R	206_E	1.859	1.00
148_L	159_L	1.850	1.00
149_N	158_E	1.815	1.00
127_A	172_Y	1.814	1.00
16_I	120_V	1.794	1.00
16_I	118_Y	1.794	1.00
20_V	34_A	1.777	1.00
191_D	213_S	1.762	1.00
143_F	167_E	1.743	1.00
112_F	117_G	1.687	1.00
20_V	91_A	1.685	1.00
21_P	98_L	1.681	1.00
121_P	207_F	1.636	1.00
43_A	90_I	1.627	1.00
197_T	207_F	1.604	1.00
210_G	214_E	1.603	1.00
255_H	276_D	1.597	1.00
255_H	277_R	1.586	1.00
183_S	220_N	1.586	1.00
45_A	80_I	1.577	1.00
69_H	72_N	1.566	1.00
76_S	79_K	1.566	1.00
77_G	111_D	1.563	1.00
259_Y	276_D	1.551	1.00
41_V	91_A	1.542	1.00
41_V	89_N	1.524	1.00
128_A	172_Y	1.512	1.00
265_T	268_E	1.512	1.00
82_E	86_S	1.502	1.00
195_A	207_F	1.499	1.00
181_T	230_L	1.495	1.00
185_M	232_V	1.490	1.00
111_D	115_I	1.489	1.00
145_Y	158_E	1.489	1.00
43_A	83_W	1.488	1.00
145_Y	167_E	1.480	1.00
98_L	133_I	1.474	1.00
156_K	184_A	1.472	1.00
253_K	287_A	1.471	1.00
264_A	272_K	1.444	1.00
121_P	134_A	1.440	1.00
84_L	117_G	1.439	1.00
19_L	109_V	1.435	1.00
46_A	65_L	1.432	1.00
45_A	90_I	1.430	1.00
270_I	274_A	1.414	1.00
257_E	261_S	1.413	1.00
81_I	85_K	1.412	1.00
141_P	145_Y	1.410	1.00
102_S	144_F	1.406	1.00
279_V	284_V	1.405	1.00
171_F	232_V	1.392	1.00
153_K	157_K	1.389	1.00
210_G	215_V	1.374	1.00
266_S	270_I	1.362	1.00
126_N	129_L	1.360	1.00
173_E	177_R	1.358	1.00
158_E	161_A	1.353	1.00
42_D	88_K	1.351	1.00
143_F	165_R	1.348	1.00
20_V	37_T	1.341	1.00
121_P	133_I	1.323	1.00
66_V	76_S	1.319	1.00
160_E	163_K	1.317	1.00
17_L	84_L	1.308	1.00
68_Y	77_G	1.301	1.00
45_A	66_V	1.293	1.00
156_K	160_E	1.293	1.00
30_M	59_Y	1.291	1.00
35_I	39_K	1.283	1.00
44_I	63_T	1.277	1.00
159_L	185_M	1.274	1.00
152_K	184_A	1.269	1.00
208_I	215_V	1.267	1.00
266_S	288_Y	1.262	1.00
73_K	107_E	1.258	1.00
83_W	86_S	1.254	1.00
67_S	76_S	1.246	1.00
251_T	254_E	1.236	1.00
178_L	228_F	1.224	1.00
211_T	214_E	1.215	1.00
156_K	187_E	1.213	1.00
259_Y	272_K	1.211	1.00
30_M	34_A	1.209	1.00
120_V	205_E	1.209	1.00
272_K	276_D	1.201	1.00
192_R	234_G	1.194	1.00
161_A	166_Q	1.187	1.00
218_W	222_D	1.182	1.00
208_I	218_W	1.181	1.00
186_A	213_S	1.181	1.00
195_A	231_V	1.178	1.00
186_A	212_I	1.168	1.00
196_V	219_A	1.168	1.00
106_A	138_V	1.154	1.00
98_L	121_P	1.152	1.00
217_G	221_E	1.150	1.00
78_H	111_D	1.150	1.00
186_A	216_I	1.143	1.00
185_M	189_L	1.143	1.00
252_A	284_V	1.141	1.00
82_E	85_K	1.134	1.00
217_G	220_N	1.126	1.00
16_I	84_L	1.124	1.00
219_A	224_I	1.118	1.00
18_Y	37_T	1.114	1.00
64_P	83_W	1.114	1.00
68_Y	73_K	1.109	1.00
260_I	266_S	1.101	1.00
110_K	193_E	1.095	1.00
270_I	288_Y	1.081	0.99
271_K	281_K	1.076	0.99
128_A	170_I	1.075	0.99
196_V	228_F	1.075	0.99
190_G	212_I	1.071	0.99
183_S	216_I	1.067	0.99
253_K	257_E	1.055	0.99
27_L	58_V	1.051	0.99
21_P	130_T	1.049	0.99
106_A	110_K	1.043	0.99
36_D	39_K	1.040	0.99
110_K	114_D	1.018	0.99
126_N	172_Y	1.014	0.99
18_Y	41_V	0.999	0.99
43_A	66_V	0.997	0.99
16_I	89_N	0.995	0.99
216_I	220_N	0.990	0.99
195_A	209_R	0.987	0.99
54_K	57_H	0.984	0.99
198_R	228_F	0.980	0.99
44_I	56_C	0.980	0.99
32_F	39_K	0.979	0.99
169_I	189_L	0.974	0.99
193_E	211_T	0.974	0.99
179_K	183_S	0.971	0.99
120_V	134_A	0.971	0.99
267_K	271_K	0.962	0.99
185_M	188_I	0.957	0.99
51_Q	54_K	0.957	0.99
32_F	59_Y	0.956	0.99
162_L	165_R	0.950	0.99
273_A	284_V	0.948	0.99
130_T	134_A	0.940	0.99
256_V	288_Y	0.940	0.99
208_I	219_A	0.937	0.99
143_F	169_I	0.937	0.99
17_L	92_L	0.927	0.98
121_P	130_T	0.927	0.98
178_L	219_A	0.927	0.98
269_A	273_A	0.925	0.98
37_T	91_A	0.925	0.98
73_K	77_G	0.921	0.98
179_K	216_I	0.920	0.98
252_A	255_H	0.918	0.98
168_T	231_V	0.909	0.98
81_I	112_F	0.909	0.98
165_R	169_I	0.907	0.98
79_K	83_W	0.905	0.98
31_T	125_A	0.904	0.98
29_D	123_P	0.899	0.98
66_V	80_I	0.889	0.98
67_S	72_N	0.887	0.98
152_K	156_K	0.882	0.98
37_T	122_L	0.879	0.98
179_K	220_N	0.877	0.98
145_Y	162_L	0.876	0.98
196_V	215_V	0.875	0.98
31_T	122_L	0.875	0.98
80_I	90_I	0.871	0.98
170_I	231_V	0.870	0.98
156_K	188_I	0.870	0.98
51_Q	95_D	0.869	0.98
137_I	231_V	0.868	0.98
68_Y	76_S	0.864	0.97
224_I	228_F	0.860	0.97
270_I	289_H	0.856	0.97
70_E	73_K	0.853	0.97
171_F	181_T	0.842	0.97
181_T	185_M	0.842	0.97
54_K	58_V	0.839	0.97
43_A	88_K	0.838	0.97
233_E	236_N	0.835	0.97
19_L	133_I	0.834	0.97
150_R	177_R	0.831	0.97
214_E	217_G	0.828	0.97
255_H	259_Y	0.822	0.97
256_V	273_A	0.822	0.97
254_E	258_H	0.816	0.96
28_E	32_F	0.814	0.96
72_N	78_H	0.813	0.96
53_K	65_L	0.810	0.96
131_A	231_V	0.804	0.96
257_E	288_Y	0.804	0.96
259_Y	263_G	0.802	0.96
106_A	140_Q	0.801	0.96
178_L	230_L	0.794	0.96
32_F	36_D	0.792	0.96
277_R	284_V	0.791	0.96
259_Y	264_A	0.791	0.96
122_L	130_T	0.779	0.95
42_D	63_T	0.777	0.95
257_E	260_I	0.776	0.95
159_L	188_I	0.772	0.95
182_L	216_I	0.772	0.95
78_H	82_E	0.770	0.95
178_L	224_I	0.768	0.95
100_T	106_A	0.767	0.95
94_S	100_T	0.766	0.95
68_Y	108_I	0.764	0.95
169_I	232_V	0.764	0.95
279_V	283_E	0.759	0.95
266_S	289_H	0.759	0.95
267_K	282_R	0.757	0.95
139_P	168_T	0.756	0.95
182_L	219_A	0.755	0.95
98_L	129_L	0.752	0.94
157_K	160_E	0.751	0.94
100_T	109_V	0.750	0.94
130_T	200_L	0.750	0.94
56_C	63_T	0.749	0.94
251_T	255_H	0.745	0.94
18_Y	120_V	0.742	0.94
258_H	262_K	0.741	0.94
21_P	134_A	0.740	0.94
273_A	276_D	0.739	0.94
77_G	81_I	0.738	0.94
132_L	168_T	0.738	0.94
268_E	272_K	0.736	0.94
77_G	107_E	0.736	0.94
286_D	289_H	0.731	0.94
100_T	133_I	0.730	0.93
53_K	62_E	0.726	0.93
162_L	189_L	0.725	0.93
176_H	225_R	0.719	0.93
184_A	187_E	0.713	0.93
81_I	115_I	0.713	0.93
138_V	168_T	0.713	0.93
43_A	64_P	0.711	0.93
222_D	225_R	0.710	0.93
212_I	216_I	0.709	0.92
253_K	284_V	0.705	0.92
267_K	281_K	0.700	0.92
130_T	201_T	0.700	0.92
52_T	65_L	0.699	0.92
178_L	196_V	0.698	0.92
18_Y	89_N	0.698	0.92
256_V	260_I	0.698	0.92
57_H	62_E	0.695	0.92
17_L	112_F	0.695	0.92
270_I	280_P	0.694	0.92
28_E	59_Y	0.692	0.92
134_A	195_A	0.690	0.91
70_E	106_A	0.688	0.91
181_T	184_A	0.687	0.91
40_S	89_N	0.686	0.91
81_I	117_G	0.684	0.91
258_H	261_S	0.684	0.91
14_M	118_Y	0.683	0.91
139_P	170_I	0.681	0.91
162_L	169_I	0.679	0.91
262_K	272_K	0.677	0.91
39_K	60_E	0.675	0.91
283_E	286_D	0.675	0.91
79_K	82_E	0.673	0.90
21_P	125_A	0.673	0.90
155_K	181_T	0.673	0.90
123_P	130_T	0.670	0.90
218_W	224_I	0.669	0.90
109_V	113_T	0.669	0.90
206_E	224_I	0.668	0.90
46_A	52_T	0.664	0.90
164_K	235_S	0.663	0.90
253_K	256_V	0.660	0.90
131_A	197_T	0.658	0.89
255_H	258_H	0.655	0.89
282_R	286_D	0.654	0.89
280_P	283_E	0.652	0.89
149_N	154_E	0.648	0.89
66_V	83_W	0.646	0.89
196_V	218_W	0.646	0.89
28_E	40_S	0.645	0.88
122_L	201_T	0.642	0.88
84_L	90_I	0.642	0.88
92_L	108_I	0.642	0.88
179_K	224_I	0.642	0.88
134_A	197_T	0.638	0.88
178_L	218_W	0.634	0.88
206_E	222_D	0.633	0.88
197_T	231_V	0.632	0.87
21_P	126_N	0.629	0.87
163_K	189_L	0.629	0.87
145_Y	169_I	0.628	0.87
70_E	107_E	0.627	0.87
160_E	188_I	0.627	0.87
283_E	287_A	0.625	0.87
171_F	189_L	0.624	0.87
270_I	284_V	0.617	0.86
192_R	232_V	0.615	0.86
219_A	228_F	0.609	0.85
200_L	207_F	0.607	0.85
182_L	196_V	0.607	0.85
37_T	40_S	0.604	0.85
129_L	133_I	0.602	0.85
273_A	277_R	0.602	0.85
21_P	201_T	0.601	0.85
212_I	232_V	0.600	0.85
163_K	188_I	0.598	0.84
263_G	268_E	0.592	0.84
266_S	282_R	0.591	0.84
197_T	200_L	0.589	0.84
275_V	282_R	0.589	0.84
137_I	168_T	0.586	0.83
208_I	223_Q	0.583	0.83
255_H	273_A	0.582	0.83
74_E	107_E	0.581	0.83
186_A	191_D	0.581	0.83
213_S	217_G	0.578	0.82
132_L	139_P	0.576	0.82
137_I	195_A	0.575	0.82
53_K	63_T	0.575	0.82
264_A	269_A	0.571	0.82
15_G	84_L	0.571	0.82
162_L	171_F	0.570	0.81
141_P	168_T	0.569	0.81
100_T	139_P	0.568	0.81
251_T	277_R	0.567	0.81
53_K	56_C	0.567	0.81
151_Q	154_E	0.565	0.81
150_R	154_E	0.565	0.81
59_Y	63_T	0.562	0.81
256_V	269_A	0.558	0.80
219_A	223_Q	0.556	0.80
145_Y	165_R	0.556	0.80
20_V	44_I	0.555	0.80
22_T	27_L	0.553	0.80
159_L	189_L	0.553	0.80
260_I	270_I	0.550	0.79
141_P	167_E	0.548	0.79
180_E	184_A	0.546	0.79
267_K	275_V	0.543	0.78
98_L	130_T	0.542	0.78
98_L	126_N	0.542	0.78
18_Y	91_A	0.542	0.78
270_I	273_A	0.542	0.78
129_L	172_Y	0.541	0.78
128_A	142_F	0.540	0.78
110_K	113_T	0.539	0.78
166_Q	237_N	0.537	0.78
265_T	270_I	0.537	0.78
178_L	198_R	0.537	0.78
182_L	212_I	0.534	0.77
113_T	136_G	0.533	0.77
81_I	111_D	0.530	0.77
106_A	139_P	0.530	0.77
252_A	287_A	0.529	0.76
196_V	208_I	0.529	0.76
70_E	100_T	0.528	0.76
172_Y	229_C	0.528	0.76
72_N	76_S	0.527	0.76
122_L	134_A	0.526	0.76
212_I	215_V	0.526	0.76
75_S	79_K	0.523	0.76
107_E	111_D	0.521	0.75
254_E	287_A	0.519	0.75
254_E	257_E	0.518	0.75
185_M	230_L	0.518	0.75
191_D	211_T	0.518	0.75
75_S	78_H	0.517	0.75
257_E	284_V	0.516	0.75
196_V	212_I	0.514	0.74
20_V	122_L	0.513	0.74
262_K	275_V	0.513	0.74
199_E	204_Y	0.512	0.74
49_T	67_S	0.511	0.74
260_I	269_A	0.510	0.74
164_K	238_E	0.510	0.74
256_V	270_I	0.508	0.74
184_A	188_I	0.504	0.73
225_R	228_F	0.504	0.73
165_R	234_G	0.502	0.73
92_L	112_F	0.501	0.73
154_E	157_K	0.501	0.73
192_R	233_E	0.500	0.72

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
3kwpA	2	0.7774	100	0.351	Contact Map
1wyzA	2	0.7329	100	0.601	Contact Map
1cbfA	2	0.7877	100	0.616	Contact Map
4e16A	2	0.7568	100	0.625	Contact Map
1s4dA	4	0.8664	100	0.632	Contact Map
2yboA	2	0.8151	100	0.633	Contact Map
3ndcA	2	0.7911	100	0.634	Contact Map
1pjqA	2	0.8253	100	0.647	Contact Map
1va0A	2	0.75	100	0.65	Contact Map
1ve2A	2	0.75	100	0.652	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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