Q7LXK6 - SULSO - GREMLIN Contacts

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Q7LXK6 - rRNA adenine N-6-methyltransferase (Erm/ksgA)

UniProt:	Q7LXK6	Sequences: MDNGIRPILEIGCGKGNITRFLEPDICIELDDKMIEYLKNFNLVIADARYLPVLRGQLVSSLPYQITSDFFKEVIKLNNIRKLTLILQKDFVDKIFNDSTYISFLLNYIYNIQIKDIIPPSCFSPRPKVYSIITIFNRIREYDKEVDSILSCISRYRNKTLRKASKLCGFSSNNDLKVREFKPWQVLELLNSVG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	194 (187)
Sequences:	4416 (2651)
Seq/√Len:	193.8

ECOLI - RSMA
BACSU - RSMA
HALSA - RSMA
SULSO - Q7LXK6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
176_L	180_E	3.710	1.00
23_E	41_F	3.275	1.00
176_L	185_Q	3.084	1.00
182_K	185_Q	2.896	1.00
92_V	132_I	2.647	1.00
185_Q	188_E	2.558	1.00
35_I	45_I	2.527	1.00
64_Y	131_S	2.332	1.00
111_N	137_N	2.299	1.00
21_F	24_P	2.223	1.00
120_P	130_Y	2.215	1.00
89_K	117_I	2.204	1.00
93_D	114_I	2.203	1.00
119_P	122_C	2.151	1.00
113_Q	137_N	2.151	1.00
153_I	186_V	2.141	1.00
113_Q	135_I	2.131	1.00
111_N	139_I	2.086	1.00
6_R	57_Q	2.047	1.00
32_D	45_I	2.010	1.00
110_Y	136_F	1.996	1.00
13_C	27_C	1.976	1.00
149_I	190_L	1.952	1.00
22_L	59_V	1.951	1.00
160_T	175_D	1.926	1.00
96_F	112_I	1.889	1.00
115_K	135_I	1.849	1.00
181_F	185_Q	1.812	1.00
103_S	107_N	1.806	1.00
86_I	118_I	1.792	1.00
114_I	117_I	1.725	1.00
28_I	51_L	1.721	1.00
117_I	132_I	1.713	1.00
114_I	132_I	1.679	1.00
139_I	143_D	1.665	1.00
57_Q	82_K	1.661	1.00
72_K	105_L	1.637	1.00
48_A	53_V	1.616	1.00
89_K	93_D	1.574	1.00
82_K	135_I	1.567	1.00
39_K	45_I	1.551	1.00
84_T	135_I	1.551	1.00
28_I	48_A	1.548	1.00
188_E	191_N	1.539	1.00
71_F	87_L	1.538	1.00
73_E	77_L	1.515	1.00
95_I	106_L	1.506	1.00
104_F	150_L	1.504	1.00
48_A	70_F	1.491	1.00
145_E	190_L	1.489	1.00
44_V	51_L	1.431	1.00
106_L	112_I	1.430	1.00
35_I	39_K	1.423	1.00
104_F	183_P	1.405	1.00
160_T	163_K	1.393	1.00
58_L	74_V	1.340	1.00
67_T	87_L	1.338	1.00
118_I	133_I	1.326	1.00
84_T	133_I	1.322	1.00
153_I	178_V	1.319	1.00
89_K	130_Y	1.317	1.00
108_Y	146_V	1.317	1.00
55_R	81_R	1.312	1.00
27_C	43_L	1.310	1.00
87_L	92_V	1.288	1.00
110_Y	138_R	1.283	1.00
158_N	179_R	1.283	1.00
146_V	150_L	1.278	1.00
120_P	128_K	1.277	1.00
62_L	85_L	1.270	1.00
121_S	126_R	1.235	1.00
95_I	134_T	1.233	1.00
47_D	50_Y	1.227	1.00
67_T	91_F	1.220	1.00
116_D	133_I	1.220	1.00
117_I	130_Y	1.217	1.00
170_F	173_N	1.201	1.00
15_K	37_Y	1.189	1.00
155_R	164_A	1.183	1.00
27_C	41_F	1.178	1.00
153_I	161_L	1.154	1.00
107_N	112_I	1.133	1.00
93_D	100_T	1.132	1.00
60_S	85_L	1.130	1.00
153_I	164_A	1.120	1.00
82_K	137_N	1.119	1.00
15_K	34_M	1.113	1.00
75_I	110_Y	1.105	1.00
187_L	191_N	1.094	1.00
46_A	51_L	1.092	1.00
9_L	28_I	1.088	1.00
96_F	114_I	1.079	1.00
11_I	58_L	1.053	1.00
110_Y	139_I	1.039	1.00
13_C	38_L	1.020	1.00
89_K	132_I	1.017	1.00
108_Y	183_P	1.016	1.00
46_A	50_Y	1.006	1.00
109_I	147_D	1.003	1.00
8_I	26_I	0.986	0.99
164_A	178_V	0.985	0.99
62_L	70_F	0.963	0.99
35_I	43_L	0.960	0.99
95_I	112_I	0.947	0.99
66_I	70_F	0.943	0.99
139_I	142_Y	0.937	0.99
120_P	126_R	0.934	0.99
76_K	147_D	0.931	0.99
49_R	66_I	0.912	0.99
184_W	188_E	0.911	0.99
36_E	39_K	0.907	0.99
37_Y	40_N	0.906	0.99
21_F	25_D	0.897	0.99
178_V	186_V	0.894	0.99
145_E	149_I	0.887	0.99
27_C	38_L	0.880	0.99
142_Y	187_L	0.880	0.99
71_F	95_I	0.865	0.99
38_L	43_L	0.860	0.99
89_K	114_I	0.852	0.98
149_I	153_I	0.850	0.98
119_P	130_Y	0.849	0.98
104_F	186_V	0.845	0.98
9_L	56_G	0.842	0.98
48_A	62_L	0.837	0.98
36_E	40_N	0.833	0.98
64_Y	86_I	0.830	0.98
57_Q	84_T	0.823	0.98
169_G	172_S	0.821	0.98
57_Q	81_R	0.821	0.98
105_L	147_D	0.815	0.98
56_G	80_I	0.808	0.98
83_L	138_R	0.804	0.98
145_E	148_S	0.797	0.98
146_V	190_L	0.792	0.98
54_L	77_L	0.788	0.97
140_R	143_D	0.785	0.97
17_N	21_F	0.784	0.97
48_A	66_I	0.778	0.97
148_S	152_C	0.771	0.97
152_C	178_V	0.771	0.97
96_F	132_I	0.769	0.97
71_F	106_L	0.767	0.97
29_E	35_I	0.763	0.97
15_K	124_S	0.759	0.97
156_Y	164_A	0.758	0.97
32_D	35_I	0.758	0.97
55_R	140_R	0.747	0.97
58_L	85_L	0.746	0.97
101_Y	186_V	0.742	0.96
148_S	168_C	0.739	0.96
53_V	73_E	0.737	0.96
80_I	83_L	0.737	0.96
58_L	80_I	0.737	0.96
11_I	85_L	0.728	0.96
53_V	70_F	0.727	0.96
146_V	149_I	0.727	0.96
111_N	143_D	0.726	0.96
6_R	81_R	0.724	0.96
93_D	117_I	0.724	0.96
108_Y	187_L	0.721	0.96
54_L	79_N	0.719	0.96
96_F	134_T	0.711	0.95
75_I	106_L	0.709	0.95
77_L	80_I	0.697	0.95
72_K	76_K	0.697	0.95
181_F	186_V	0.695	0.95
108_Y	147_D	0.687	0.94
94_K	97_N	0.686	0.94
175_D	180_E	0.686	0.94
144_K	148_S	0.684	0.94
118_I	122_C	0.683	0.94
86_I	133_I	0.679	0.94
30_L	45_I	0.678	0.94
169_G	173_N	0.676	0.94
152_C	168_C	0.675	0.94
116_D	132_I	0.674	0.94
7_P	42_N	0.674	0.94
149_I	168_C	0.672	0.94
118_I	129_V	0.670	0.94
33_K	36_E	0.663	0.93
160_T	164_A	0.659	0.93
76_K	144_K	0.659	0.93
28_I	164_A	0.658	0.93
68_S	72_K	0.657	0.93
59_V	84_T	0.655	0.93
86_I	131_S	0.655	0.93
184_W	187_L	0.652	0.93
48_A	73_E	0.646	0.93
12_G	16_G	0.642	0.92
68_S	83_L	0.641	0.92
87_L	106_L	0.640	0.92
146_V	187_L	0.639	0.92
162_R	166_K	0.638	0.92
83_L	136_F	0.637	0.92
158_N	177_K	0.633	0.92
161_L	165_S	0.628	0.91
62_L	67_T	0.626	0.91
69_D	73_E	0.623	0.91
8_I	57_Q	0.620	0.91
122_C	126_R	0.618	0.91
146_V	183_P	0.616	0.91
153_I	165_S	0.612	0.90
32_D	140_R	0.611	0.90
17_N	60_S	0.610	0.90
61_S	86_I	0.609	0.90
168_C	171_S	0.607	0.90
149_I	189_L	0.607	0.90
157_R	164_A	0.607	0.90
107_N	183_P	0.603	0.90
120_P	129_V	0.603	0.90
91_F	102_I	0.600	0.89
149_I	186_V	0.595	0.89
16_G	23_E	0.591	0.89
9_L	53_V	0.590	0.89
67_T	71_F	0.589	0.89
53_V	77_L	0.586	0.88
98_D	107_N	0.582	0.88
108_Y	139_I	0.577	0.88
121_S	124_S	0.576	0.88
112_I	134_T	0.571	0.87
66_I	69_D	0.571	0.87
87_L	95_I	0.570	0.87
157_R	179_R	0.569	0.87
161_L	176_L	0.569	0.87
21_F	26_I	0.569	0.87
6_R	26_I	0.568	0.87
99_S	182_K	0.568	0.87
13_C	23_E	0.565	0.87
30_L	46_A	0.563	0.86
19_T	27_C	0.563	0.86
183_P	187_L	0.562	0.86
83_L	87_L	0.560	0.86
94_K	157_R	0.559	0.86
120_P	132_I	0.558	0.86
87_L	134_T	0.556	0.86
117_I	120_P	0.554	0.85
29_E	34_M	0.552	0.85
8_I	25_D	0.552	0.85
88_Q	94_K	0.541	0.84
101_Y	104_F	0.540	0.84
65_Q	68_S	0.540	0.84
123_F	131_S	0.540	0.84
7_P	56_G	0.538	0.84
49_R	73_E	0.536	0.84
67_T	72_K	0.536	0.84
160_T	180_E	0.535	0.83
161_L	181_F	0.534	0.83
95_I	103_S	0.534	0.83
69_D	74_V	0.533	0.83
23_E	26_I	0.532	0.83
163_K	179_R	0.530	0.83
126_R	151_S	0.529	0.83
58_L	70_F	0.527	0.83
15_K	20_R	0.527	0.83
19_T	22_L	0.526	0.82
62_L	83_L	0.525	0.82
48_A	51_L	0.523	0.82
17_N	34_M	0.523	0.82
92_V	117_I	0.522	0.82
5_I	26_I	0.521	0.82
104_F	107_N	0.520	0.82
155_R	178_V	0.519	0.82
19_T	41_F	0.518	0.81
104_F	146_V	0.518	0.81
65_Q	128_K	0.517	0.81
62_L	86_I	0.510	0.80
18_I	131_S	0.509	0.80
68_S	91_F	0.509	0.80
119_P	132_I	0.509	0.80
166_K	171_S	0.508	0.80
155_R	168_C	0.507	0.80
101_Y	183_P	0.506	0.80
88_Q	154_S	0.506	0.80
74_V	83_L	0.506	0.80
42_N	137_N	0.505	0.80
7_P	57_Q	0.504	0.80
178_V	187_L	0.504	0.80
86_I	156_Y	0.501	0.79
95_I	102_I	0.500	0.79

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
1i4wA	1	1	100	0.279	Contact Map
4gc5A	2	1	100	0.305	Contact Map
4jxjA	1	0.9948	100	0.333	Contact Map
1qyrA	1	1	100	0.34	Contact Map
3tqsA	1	1	100	0.353	Contact Map
3uzuA	1	1	100	0.354	Contact Map
3futA	1	0.9948	100	0.355	Contact Map
3ftdA	1	1	100	0.372	Contact Map
3gruA	1	0.9948	100	0.38	Contact Map
1zq9A	2	1	100	0.43	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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