RSMH - BACSU - GREMLIN Contacts

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RSMH - Ribosomal RNA small subunit methyltransferase H

UniProt:	Q07876	Sequences: MFQHKTVLLRETVDGLNIKPDGTYVDCTLGGAGHSTYLLQQLSEKGRLIAFDQDDTALQHAKEVLSDYKGQLILIKSNFRYLKEYLNEQGVTEVDGILFDLGVSSPQLDTPERGFSYHHDAPLDMRMDQSATLSAKEVVNEWRYEDLVRIFFKYGEEKFSKQIARKIEEARMKSPIQTTGQLVDLIKDAIPAPARRSGGHPAKRVFQAIRIAVNDELRVFEEALEQAIEVLKPGGRVSVITFHSLEDRICKTTFKEKSSLPELPPGLPVIPEEFEPELKLITRKPITASQEELEENNRARSAKLRIAEKRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (303)
Sequences:	4108 (2701)
Seq/√Len:	155.2

ECOLI - RSMH
BACSU - RSMH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
215_D	218_R	4.360	1.00
151_F	205_V	4.261	1.00
27_C	99_F	3.226	1.00
35_S	48_L	2.946	1.00
37_Y	40_Q	2.888	1.00
15_G	306_I	2.787	1.00
47_R	73_I	2.729	1.00
279_K	308_E	2.650	1.00
95_D	232_K	2.650	1.00
174_S	181_Q	2.648	1.00
99_F	223_A	2.613	1.00
77_S	81_Y	2.563	1.00
149_R	153_K	2.385	1.00
51_F	77_S	2.327	1.00
138_V	142_W	2.302	1.00
138_V	212_A	2.284	1.00
142_W	212_A	2.234	1.00
31_G	106_P	2.225	1.00
176_I	185_L	2.211	1.00
25_V	94_V	2.204	1.00
236_R	308_E	2.163	1.00
83_K	226_Q	2.160	1.00
55_D	129_Q	2.148	1.00
80_R	219_V	2.138	1.00
278_L	307_A	2.132	1.00
170_A	181_Q	2.093	1.00
120_D	180_G	2.036	1.00
78_N	219_V	2.029	1.00
144_Y	165_R	2.029	1.00
9_L	37_Y	2.018	1.00
53_Q	219_V	2.009	1.00
51_F	85_Y	1.992	1.00
58_L	74_L	1.967	1.00
77_S	85_Y	1.962	1.00
146_D	149_R	1.912	1.00
93_E	232_K	1.904	1.00
166_K	189_A	1.892	1.00
11_E	289_S	1.879	1.00
36_T	64_V	1.876	1.00
103_V	108_L	1.838	1.00
143_R	146_D	1.822	1.00
87_N	230_V	1.801	1.00
53_Q	78_N	1.768	1.00
83_K	229_E	1.760	1.00
228_I	278_L	1.699	1.00
148_V	161_K	1.698	1.00
5_K	295_E	1.687	1.00
291_E	295_E	1.679	1.00
152_F	160_S	1.657	1.00
144_Y	148_V	1.632	1.00
19_K	95_D	1.596	1.00
137_E	141_E	1.593	1.00
49_I	91_V	1.562	1.00
80_R	222_E	1.534	1.00
105_S	298_R	1.530	1.00
117_Y	203_K	1.522	1.00
55_D	76_K	1.518	1.00
94_V	97_I	1.517	1.00
144_Y	161_K	1.517	1.00
42_L	46_G	1.504	1.00
156_E	245_L	1.492	1.00
128_D	131_A	1.456	1.00
105_S	109_D	1.447	1.00
86_L	91_V	1.443	1.00
138_V	209_I	1.440	1.00
76_K	130_S	1.438	1.00
15_G	238_S	1.436	1.00
147_L	151_F	1.432	1.00
166_K	169_E	1.427	1.00
37_Y	41_Q	1.420	1.00
101_L	220_F	1.414	1.00
221_E	249_I	1.386	1.00
63_E	66_S	1.382	1.00
186_I	205_V	1.381	1.00
136_K	177_Q	1.375	1.00
134_S	137_E	1.372	1.00
170_A	173_K	1.371	1.00
185_L	189_A	1.367	1.00
238_S	304_L	1.364	1.00
254_F	307_A	1.362	1.00
8_L	286_I	1.361	1.00
25_V	86_L	1.350	1.00
144_Y	168_E	1.345	1.00
109_D	298_R	1.330	1.00
168_E	171_R	1.330	1.00
82_L	230_V	1.330	1.00
10_R	14_D	1.328	1.00
285_P	303_K	1.327	1.00
152_F	161_K	1.323	1.00
220_F	250_C	1.323	1.00
234_G	308_E	1.312	1.00
228_I	257_K	1.309	1.00
169_E	172_M	1.309	1.00
227_A	237_V	1.296	1.00
133_L	141_E	1.276	1.00
263_L	272_E	1.249	1.00
142_W	147_L	1.246	1.00
153_K	221_E	1.239	1.00
238_S	306_I	1.237	1.00
231_L	237_V	1.229	1.00
148_V	152_F	1.227	1.00
261_P	270_I	1.227	1.00
55_D	59_Q	1.225	1.00
75_I	89_Q	1.223	1.00
258_S	280_L	1.217	1.00
36_T	67_D	1.207	1.00
257_K	277_E	1.207	1.00
184_D	187_K	1.202	1.00
13_V	37_Y	1.198	1.00
76_K	128_D	1.191	1.00
14_D	41_Q	1.190	1.00
261_P	272_E	1.187	1.00
290_Q	294_E	1.187	1.00
50_A	72_L	1.171	1.00
120_D	178_T	1.169	1.00
218_R	221_E	1.168	1.00
75_I	85_Y	1.167	1.00
36_T	40_Q	1.166	1.00
254_F	280_L	1.163	1.00
149_R	152_F	1.160	1.00
263_L	270_I	1.157	1.00
56_T	110_T	1.151	1.00
85_Y	88_E	1.149	1.00
21_D	45_K	1.148	1.00
22_G	96_G	1.145	1.00
12_T	238_S	1.135	1.00
281_I	306_I	1.133	1.00
287_T	303_K	1.133	1.00
133_L	142_W	1.120	1.00
73_I	89_Q	1.117	1.00
81_Y	84_E	1.114	1.00
177_Q	181_Q	1.110	1.00
24_Y	96_G	1.109	0.99
12_T	98_L	1.106	0.99
288_A	302_A	1.103	0.99
23_T	49_I	1.098	0.99
156_E	248_R	1.085	0.99
253_T	257_K	1.084	0.99
56_T	106_P	1.081	0.99
170_A	188_D	1.078	0.99
111_P	119_H	1.075	0.99
170_A	176_I	1.067	0.99
39_L	72_L	1.059	0.99
217_L	249_I	1.057	0.99
165_R	169_E	1.047	0.99
136_K	175_P	1.046	0.99
162_Q	189_A	1.044	0.99
29_L	50_A	1.043	0.99
24_Y	38_L	1.041	0.99
174_S	177_Q	1.036	0.99
122_P	136_K	1.034	0.99
6_T	12_T	1.034	0.99
59_Q	62_K	1.031	0.99
187_K	200_H	1.031	0.99
85_Y	89_Q	1.029	0.99
192_A	195_R	1.027	0.99
139_V	176_I	1.022	0.99
154_Y	211_I	1.016	0.99
140_N	171_R	1.016	0.99
159_F	190_I	1.011	0.99
8_L	240_I	1.005	0.99
180_G	184_D	1.002	0.99
183_V	186_I	0.999	0.99
97_I	227_A	0.999	0.99
21_D	43_S	0.997	0.99
184_D	188_D	0.996	0.99
257_K	278_L	0.992	0.99
170_A	185_L	0.992	0.99
23_T	91_V	0.991	0.99
59_Q	63_E	0.991	0.99
6_T	13_V	0.991	0.99
38_L	46_G	0.985	0.99
55_D	130_S	0.974	0.99
229_E	277_E	0.974	0.99
148_V	164_A	0.973	0.99
195_R	198_G	0.969	0.99
49_I	89_Q	0.964	0.99
31_G	60_H	0.963	0.99
49_I	75_I	0.961	0.99
65_L	68_Y	0.955	0.98
287_T	293_L	0.952	0.98
35_S	50_A	0.951	0.98
183_V	202_A	0.950	0.98
215_D	219_V	0.946	0.98
36_T	68_Y	0.945	0.98
18_I	42_L	0.934	0.98
237_V	254_F	0.929	0.98
199_G	203_K	0.925	0.98
163_I	205_V	0.923	0.98
135_A	209_I	0.920	0.98
159_F	191_P	0.914	0.98
101_L	239_V	0.913	0.98
34_H	240_I	0.911	0.98
60_H	106_P	0.909	0.98
23_T	94_V	0.908	0.98
58_L	76_K	0.906	0.98
144_Y	164_A	0.904	0.98
21_D	42_L	0.897	0.98
24_Y	46_G	0.896	0.98
34_H	98_L	0.891	0.98
25_V	51_F	0.890	0.98
138_V	150_I	0.889	0.98
48_L	72_L	0.887	0.98
262_E	274_F	0.880	0.97
29_L	65_L	0.879	0.97
225_E	253_T	0.864	0.97
148_V	160_S	0.864	0.97
80_R	215_D	0.859	0.97
162_Q	191_P	0.857	0.97
39_L	71_Q	0.857	0.97
293_L	299_A	0.856	0.97
5_K	299_A	0.855	0.97
162_Q	166_K	0.852	0.97
97_I	230_V	0.851	0.97
278_L	309_K	0.848	0.97
132_T	137_E	0.846	0.97
82_L	227_A	0.845	0.97
18_I	38_L	0.844	0.97
106_P	110_T	0.841	0.97
223_A	227_A	0.840	0.97
159_F	162_Q	0.839	0.97
282_T	285_P	0.839	0.97
247_D	305_R	0.837	0.97
176_I	181_Q	0.832	0.96
265_P	268_P	0.826	0.96
133_L	138_V	0.826	0.96
252_T	255_K	0.821	0.96
218_R	222_E	0.821	0.96
166_K	188_D	0.820	0.96
282_T	286_I	0.817	0.96
166_K	170_A	0.812	0.96
192_A	196_R	0.810	0.96
40_Q	67_D	0.809	0.96
35_S	38_L	0.808	0.96
140_N	176_I	0.808	0.96
190_I	195_R	0.808	0.96
157_E	163_I	0.806	0.96
56_T	59_Q	0.806	0.96
142_W	146_D	0.805	0.96
217_L	245_L	0.805	0.96
215_D	222_E	0.804	0.96
297_N	300_R	0.802	0.96
83_K	230_V	0.802	0.96
10_R	37_Y	0.799	0.95
35_S	72_L	0.797	0.95
138_V	213_V	0.793	0.95
53_Q	80_R	0.786	0.95
237_V	307_A	0.783	0.95
228_I	253_T	0.780	0.95
29_L	64_V	0.779	0.95
289_S	293_L	0.776	0.95
82_L	97_I	0.776	0.95
4_H	7_V	0.775	0.95
211_I	243_H	0.775	0.95
16_L	96_G	0.774	0.95
82_L	226_Q	0.774	0.95
222_E	226_Q	0.773	0.95
62_K	74_L	0.767	0.94
29_L	32_A	0.767	0.94
264_P	269_V	0.766	0.94
264_P	268_P	0.762	0.94
224_L	253_T	0.761	0.94
224_L	239_V	0.758	0.94
157_E	204_R	0.757	0.94
263_L	271_P	0.752	0.94
99_F	239_V	0.752	0.94
9_L	12_T	0.750	0.94
12_T	240_I	0.749	0.94
3_Q	31_G	0.748	0.94
38_L	48_L	0.746	0.94
40_Q	68_Y	0.744	0.93
200_H	203_K	0.738	0.93
32_A	36_T	0.735	0.93
228_I	307_A	0.733	0.93
86_L	230_V	0.732	0.93
61_A	65_L	0.732	0.93
56_T	129_Q	0.732	0.93
43_S	46_G	0.730	0.93
138_V	147_L	0.727	0.93
50_A	74_L	0.726	0.93
121_A	179_T	0.725	0.93
288_A	293_L	0.724	0.92
6_T	242_F	0.721	0.92
12_T	38_L	0.720	0.92
180_G	183_V	0.718	0.92
12_T	304_L	0.717	0.92
61_A	74_L	0.716	0.92
170_A	174_S	0.715	0.92
183_V	206_F	0.714	0.92
255_K	259_S	0.712	0.92
261_P	273_E	0.707	0.92
203_K	300_R	0.707	0.92
257_K	307_A	0.703	0.91
133_L	137_E	0.702	0.91
159_F	166_K	0.702	0.91
157_E	205_V	0.697	0.91
151_F	163_I	0.694	0.91
16_L	38_L	0.692	0.91
151_F	157_E	0.692	0.91
122_P	134_S	0.690	0.91
99_F	220_F	0.690	0.91
270_I	274_F	0.688	0.90
29_L	61_A	0.686	0.90
19_K	22_G	0.680	0.90
111_P	121_A	0.679	0.90
8_L	12_T	0.677	0.90
258_S	278_L	0.675	0.90
269_V	272_E	0.668	0.89
18_I	46_G	0.668	0.89
190_I	198_G	0.666	0.89
280_L	283_R	0.665	0.89
60_H	63_E	0.664	0.89
18_I	24_Y	0.664	0.89
11_E	286_I	0.663	0.89
162_Q	165_R	0.661	0.89
150_I	212_A	0.660	0.89
10_R	291_E	0.658	0.88
24_Y	42_L	0.658	0.88
103_V	127_M	0.656	0.88
27_C	223_A	0.656	0.88
55_D	128_D	0.655	0.88
20_P	46_G	0.653	0.88
258_S	307_A	0.651	0.88
270_I	273_E	0.650	0.88
10_R	41_Q	0.649	0.88
29_L	74_L	0.647	0.88
167_I	182_L	0.644	0.87
97_I	231_L	0.644	0.87
58_L	72_L	0.636	0.87
166_K	185_L	0.636	0.87
108_L	118_H	0.633	0.86
25_V	82_L	0.632	0.86
134_S	213_V	0.631	0.86
199_G	300_R	0.631	0.86
144_Y	172_M	0.630	0.86
53_Q	127_M	0.629	0.86
252_T	256_E	0.628	0.86
258_S	276_P	0.626	0.86
209_I	213_V	0.625	0.86
19_K	24_Y	0.625	0.86
15_G	304_L	0.621	0.85
211_I	245_L	0.618	0.85
112_E	178_T	0.615	0.85
51_F	75_I	0.615	0.85
262_E	271_P	0.613	0.85
281_I	308_E	0.612	0.85
147_L	212_A	0.607	0.84
117_Y	199_G	0.606	0.84
233_P	309_K	0.605	0.84
212_A	215_D	0.603	0.84
6_T	37_Y	0.602	0.84
261_P	271_P	0.602	0.84
286_I	306_I	0.598	0.83
145_E	161_K	0.598	0.83
262_E	270_I	0.594	0.83
118_H	300_R	0.593	0.83
240_I	302_A	0.589	0.82
39_L	70_G	0.589	0.82
229_E	257_K	0.587	0.82
170_A	184_D	0.586	0.82
221_E	252_T	0.585	0.82
267_L	271_P	0.584	0.82
139_V	209_I	0.584	0.82
91_V	94_V	0.583	0.82
223_A	226_Q	0.582	0.82
38_L	98_L	0.580	0.81
136_K	209_I	0.579	0.81
98_L	240_I	0.578	0.81
15_G	18_I	0.578	0.81
135_A	213_V	0.577	0.81
263_L	273_E	0.576	0.81
164_A	168_E	0.576	0.81
271_P	276_P	0.576	0.81
81_Y	85_Y	0.575	0.81
291_E	294_E	0.572	0.80
31_G	56_T	0.570	0.80
256_E	259_S	0.570	0.80
29_L	36_T	0.569	0.80
147_L	205_V	0.569	0.80
241_T	303_K	0.569	0.80
3_Q	106_P	0.569	0.80
27_C	97_I	0.568	0.80
169_E	173_K	0.567	0.80
149_R	161_K	0.566	0.80
251_K	305_R	0.565	0.80
255_K	258_S	0.564	0.79
277_E	307_A	0.562	0.79
283_R	303_K	0.561	0.79
15_G	281_I	0.561	0.79
27_C	94_V	0.559	0.79
42_L	71_Q	0.559	0.79
29_L	58_L	0.558	0.79
145_E	149_R	0.558	0.79
187_K	195_R	0.557	0.79
18_I	21_D	0.556	0.79
22_G	308_E	0.556	0.79
149_R	160_S	0.555	0.78
227_A	239_V	0.552	0.78
27_C	82_L	0.551	0.78
243_H	301_S	0.550	0.78
32_A	98_L	0.550	0.78
262_E	272_E	0.548	0.78
225_E	256_E	0.548	0.78
62_K	66_S	0.547	0.77
16_L	236_R	0.546	0.77
161_K	165_R	0.544	0.77
139_V	167_I	0.543	0.77
49_I	86_L	0.542	0.77
139_V	179_T	0.541	0.77
181_Q	185_L	0.541	0.77
23_T	47_R	0.540	0.76
36_T	65_L	0.539	0.76
14_D	238_S	0.539	0.76
60_H	64_V	0.539	0.76
220_F	224_L	0.538	0.76
61_A	64_V	0.538	0.76
272_E	275_E	0.534	0.76
139_V	142_W	0.532	0.75
183_V	200_H	0.531	0.75
225_E	257_K	0.530	0.75
97_I	223_A	0.530	0.75
122_P	179_T	0.529	0.75
86_L	94_V	0.526	0.75
35_S	98_L	0.525	0.74
129_Q	134_S	0.524	0.74
171_R	175_P	0.524	0.74
202_A	205_V	0.524	0.74
53_Q	128_D	0.518	0.74
10_R	289_S	0.517	0.73
190_I	205_V	0.517	0.73
99_F	227_A	0.516	0.73
155_G	245_L	0.515	0.73
57_A	127_M	0.515	0.73
10_R	295_E	0.515	0.73
224_L	250_C	0.514	0.73
3_Q	110_T	0.514	0.73
42_L	45_K	0.513	0.73
285_P	288_A	0.513	0.73
15_G	286_I	0.511	0.73
181_Q	184_D	0.511	0.73
159_F	163_I	0.510	0.72
223_A	228_I	0.510	0.72
17_N	308_E	0.510	0.72
61_A	68_Y	0.509	0.72
247_D	251_K	0.507	0.72
151_F	209_I	0.506	0.72
255_K	280_L	0.505	0.72
49_I	94_V	0.504	0.71
240_I	288_A	0.504	0.71
84_E	88_E	0.503	0.71
228_I	309_K	0.503	0.71
146_D	212_A	0.502	0.71
153_K	160_S	0.500	0.71
18_I	95_D	0.500	0.71

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
3tkaA	2	0.9035	100	0.209	Contact Map
1wg8A	1	0.9003	100	0.243	Contact Map
1m6yA	1	0.926	100	0.287	Contact Map
3eeyA	3	0.5949	99.1	0.9	Contact Map
1sqgA	1	0.6367	99	0.903	Contact Map
4ponA	2	0.5402	98.9	0.906	Contact Map
2yxlA	1	0.6495	98.9	0.908	Contact Map
1o54A	4	0.5659	98.8	0.909	Contact Map
1jsxA	1	0.4952	98.8	0.909	Contact Map
2avdA	2	0.5305	98.8	0.909	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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