CMOB - ECOLI - GREMLIN Contacts

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CMOB - tRNA (mo5U34)-methyltransferase

UniProt:	P76291	Sequences: MIDFGNFYSLIAKNHLSHWLETLPAQIANWQREQQHGLFKQWSNAVEFLPEIKPYRLDLLHSVTAESEEPLSAGQIKRIETLMRNLMPWRKGPFSLYGVNIDTEWRSDWKWDRVLPHLSDLTGRTILDVGCGSGYHMWRMIGAGAHLAVGIDPTQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDTVFSMGVLYHRRSPLEHLWQLKDQLVNEGELVLETLVIDGDENTVLVPGDRYAQMRNVYFIPSALALKNWLKKCGFVDIRIADVSVTTTEEQRRTEWMVTESLADFLDPHDPGKTVEGYPAPKRAVLIARKP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14034
Length:	323 (308)
Sequences:	559 (368)
Seq/√Len:	21.0

ECOLI - CMOB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
230_D	314_K	6.683	1.00
302_D	305_K	5.012	1.00
269_D	321_R	4.710	1.00
114_V	317_V	4.440	1.00
245_Q	292_E	4.307	1.00
80_E	84_R	4.140	1.00
229_I	235_T	3.964	1.00
272_I	318_L	3.800	1.00
137_M	148_A	3.687	1.00
204_S	207_E	3.611	1.00
247_R	264_K	3.438	1.00
119_S	221_E	3.346	1.00
141_I	174_A	3.327	1.00
66_E	70_P	3.278	1.00
123_G	146_H	3.070	0.99
271_R	319_I	2.919	0.99
131_C	150_G	2.771	0.99
55_Y	70_P	2.741	0.99
234_N	257_A	2.724	0.99
95_S	98_G	2.691	0.99
236_V	257_A	2.663	0.98
275_V	314_K	2.649	0.98
87_M	290_V	2.642	0.98
84_R	87_M	2.616	0.98
94_F	133_S	2.485	0.98
255_A	272_I	2.453	0.97
210_W	265_C	2.438	0.97
72_S	75_Q	2.357	0.97
280_T	303_P	2.333	0.96
295_A	303_P	2.328	0.96
97_Y	167_L	2.215	0.95
133_S	136_H	2.182	0.95
20_L	24_P	2.104	0.94
84_R	287_E	2.008	0.92
255_A	275_V	1.973	0.91
193_V	215_Q	1.961	0.91
259_K	272_I	1.939	0.91
259_K	318_L	1.931	0.90
277_V	314_K	1.916	0.90
115_L	143_A	1.820	0.87
277_V	304_G	1.814	0.87
137_M	174_A	1.795	0.87
252_I	292_E	1.766	0.86
232_D	235_T	1.766	0.86
299_D	305_K	1.749	0.85
292_E	296_D	1.740	0.85
96_L	164_V	1.717	0.84
60_L	143_A	1.707	0.84
95_S	100_N	1.697	0.83
165_R	169_G	1.673	0.83
127_L	193_V	1.670	0.82
79_I	167_L	1.616	0.80
73_A	76_I	1.592	0.79
30_W	155_Q	1.587	0.79
285_R	295_A	1.544	0.77
165_R	173_R	1.536	0.77
245_Q	252_I	1.521	0.76
228_V	316_A	1.520	0.76
148_A	174_A	1.505	0.75
122_T	301_H	1.503	0.75
192_T	221_E	1.502	0.75
258_L	318_L	1.500	0.75
285_R	292_E	1.498	0.75
271_R	321_R	1.488	0.74
259_K	270_I	1.469	0.73
120_D	124_R	1.464	0.73
114_V	118_L	1.452	0.72
238_V	264_K	1.437	0.72
232_D	257_A	1.418	0.71
238_V	257_A	1.399	0.70
246_M	249_V	1.391	0.69
62_S	112_D	1.372	0.68
124_R	217_V	1.359	0.67
103_T	136_H	1.352	0.67
195_S	208_H	1.348	0.67
65_A	70_P	1.341	0.66
124_R	221_E	1.338	0.66
276_S	317_V	1.336	0.66
147_L	175_H	1.327	0.65
141_I	170_N	1.320	0.65
38_L	41_Q	1.316	0.65
46_V	166_K	1.309	0.64
301_H	305_K	1.294	0.63
227_L	246_M	1.291	0.63
206_L	265_C	1.279	0.62
240_G	263_K	1.259	0.61
103_T	133_S	1.257	0.61
196_M	225_E	1.257	0.61
281_E	307_V	1.254	0.61
141_I	173_R	1.230	0.59
187_L	214_D	1.211	0.58
36_H	155_Q	1.208	0.58
124_R	192_T	1.202	0.57
35_Q	155_Q	1.201	0.57
158_L	176_L	1.192	0.57
14_N	147_L	1.184	0.56
149_V	156_L	1.179	0.56
36_H	247_R	1.176	0.56
268_V	279_T	1.166	0.55
276_S	279_T	1.158	0.55
14_N	17_S	1.156	0.54
131_C	137_M	1.136	0.53
245_Q	307_V	1.135	0.53
19_W	23_L	1.132	0.53
228_V	318_L	1.127	0.53
101_I	180_G	1.119	0.52
151_I	180_G	1.118	0.52
141_I	165_R	1.117	0.52
280_T	295_A	1.105	0.51
82_L	85_N	1.097	0.51
20_L	82_L	1.088	0.50
21_E	81_T	1.077	0.49
109_W	279_T	1.076	0.49
119_S	319_I	1.071	0.49
119_S	321_R	1.069	0.49
229_I	257_A	1.054	0.48
13_K	17_S	1.051	0.48
22_T	25_A	1.039	0.47
248_N	278_T	1.037	0.47
54_P	57_L	1.029	0.46
30_W	215_Q	1.029	0.46
17_S	21_E	1.019	0.45
170_N	173_R	1.014	0.45
14_N	18_H	1.008	0.45
235_T	257_A	0.993	0.44
74_G	78_R	0.990	0.43
55_Y	66_E	0.988	0.43
106_R	109_W	0.985	0.43
140_M	194_F	0.985	0.43
87_M	296_D	0.983	0.43
240_G	310_Y	0.979	0.43
232_D	236_V	0.976	0.43
285_R	291_T	0.974	0.42
158_L	162_E	0.968	0.42
120_D	143_A	0.967	0.42
261_W	288_W	0.960	0.42
255_A	318_L	0.959	0.41
172_Q	287_E	0.957	0.41
25_A	29_N	0.955	0.41
129_V	212_L	0.951	0.41
132_G	145_A	0.947	0.41
129_V	198_V	0.937	0.40
160_Q	248_N	0.935	0.40
197_G	200_Y	0.934	0.40
19_W	26_Q	0.931	0.40
13_K	172_Q	0.928	0.40
30_W	36_H	0.926	0.39
213_K	245_Q	0.924	0.39
52_I	96_L	0.924	0.39
228_V	246_M	0.915	0.39
58_D	64_T	0.911	0.38
149_V	174_A	0.910	0.38
252_I	310_Y	0.910	0.38
115_L	120_D	0.908	0.38
206_L	250_Y	0.905	0.38
209_L	265_C	0.904	0.38
149_V	218_N	0.900	0.38
42_W	195_S	0.900	0.38
30_W	33_E	0.897	0.38
137_M	176_L	0.893	0.37
69_E	292_E	0.891	0.37
44_N	78_R	0.889	0.37
114_V	117_H	0.887	0.37
38_L	291_T	0.886	0.37
169_G	172_Q	0.877	0.36
84_R	290_V	0.873	0.36
80_E	287_E	0.868	0.36
183_Q	264_K	0.868	0.36
89_W	201_H	0.867	0.36
290_V	305_K	0.866	0.36
36_H	264_K	0.863	0.35
14_N	318_L	0.854	0.35
35_Q	247_R	0.848	0.35
22_T	26_Q	0.846	0.34
301_H	314_K	0.845	0.34
96_L	167_L	0.839	0.34
61_H	122_T	0.836	0.34
119_S	124_R	0.836	0.34
139_R	231_G	0.831	0.34
88_P	135_Y	0.830	0.33
51_E	76_I	0.829	0.33
167_L	317_V	0.828	0.33
215_Q	291_T	0.826	0.33
41_Q	156_L	0.825	0.33
83_M	163_A	0.819	0.33
122_T	143_A	0.817	0.33
71_L	75_Q	0.815	0.33
43_S	57_L	0.814	0.33
127_L	151_I	0.814	0.33
15_H	314_K	0.809	0.32
113_R	196_M	0.809	0.32
135_Y	205_P	0.809	0.32
79_I	96_L	0.807	0.32
66_E	69_E	0.805	0.32
268_V	321_R	0.803	0.32
240_G	260_N	0.798	0.32
17_S	94_F	0.798	0.32
76_I	279_T	0.794	0.31
229_I	254_S	0.793	0.31
280_T	305_K	0.792	0.31
233_E	256_L	0.791	0.31
181_I	184_L	0.790	0.31
285_R	317_V	0.783	0.31
17_S	25_A	0.781	0.31
20_L	26_Q	0.779	0.31
18_H	25_A	0.777	0.30
37_G	42_W	0.777	0.30
296_D	320_A	0.767	0.30
192_T	223_V	0.766	0.30
28_A	295_A	0.765	0.30
281_E	304_G	0.760	0.29
87_M	289_M	0.759	0.29
29_N	122_T	0.759	0.29
136_H	154_T	0.759	0.29
127_L	196_M	0.758	0.29
138_W	208_H	0.758	0.29
276_S	314_K	0.757	0.29
47_E	61_H	0.757	0.29
118_L	221_E	0.754	0.29
165_R	174_A	0.750	0.29
123_G	214_D	0.747	0.29
222_L	274_D	0.743	0.29
100_N	281_E	0.738	0.28
91_K	243_Y	0.736	0.28
104_E	107_S	0.735	0.28
82_L	211_Q	0.735	0.28
116_P	276_S	0.735	0.28
211_Q	291_T	0.734	0.28
130_G	201_H	0.733	0.28
97_Y	166_K	0.733	0.28
285_R	289_M	0.732	0.28
27_I	161_F	0.731	0.28
193_V	274_D	0.731	0.28
212_L	258_L	0.730	0.28
111_W	118_L	0.727	0.28
30_W	35_Q	0.726	0.28
259_K	263_K	0.725	0.28
43_S	47_E	0.724	0.28
205_P	251_F	0.722	0.27
38_L	109_W	0.721	0.27
32_R	35_Q	0.721	0.27
26_Q	30_W	0.720	0.27
46_V	165_R	0.718	0.27
90_R	93_P	0.718	0.27
186_A	214_D	0.717	0.27
41_Q	48_F	0.717	0.27
18_H	22_T	0.715	0.27
84_R	305_K	0.713	0.27
21_E	25_A	0.707	0.27
86_L	160_Q	0.705	0.27
29_N	33_E	0.704	0.26
300_P	307_V	0.703	0.26
126_I	241_D	0.703	0.26
287_E	303_P	0.703	0.26
295_A	321_R	0.698	0.26
78_R	87_M	0.698	0.26
183_Q	254_S	0.695	0.26
46_V	79_I	0.694	0.26
54_P	70_P	0.694	0.26
103_T	185_P	0.693	0.26
125_T	146_H	0.693	0.26
278_T	294_L	0.691	0.26
211_Q	215_Q	0.690	0.26
160_Q	246_M	0.690	0.26
207_E	210_W	0.688	0.26
133_S	310_Y	0.688	0.26
14_N	32_R	0.687	0.26
137_M	291_T	0.685	0.26
242_R	247_R	0.684	0.25
37_G	41_Q	0.684	0.25
303_P	307_V	0.684	0.25
276_S	280_T	0.684	0.25
90_R	197_G	0.683	0.25
227_L	248_N	0.677	0.25
304_G	311_P	0.677	0.25
295_A	301_H	0.675	0.25
287_E	318_L	0.675	0.25
43_S	162_E	0.673	0.25
52_I	73_A	0.673	0.25
157_F	227_L	0.672	0.25
183_Q	296_D	0.672	0.25
185_P	204_S	0.672	0.25
212_L	226_T	0.670	0.25
227_L	249_V	0.669	0.25
193_V	317_V	0.668	0.25
297_F	310_Y	0.667	0.25
290_V	295_A	0.666	0.25
263_K	272_I	0.665	0.25
122_T	188_K	0.664	0.24
253_P	261_W	0.664	0.24
135_Y	200_Y	0.663	0.24
115_L	118_L	0.661	0.24
18_H	279_T	0.659	0.24
22_T	95_S	0.656	0.24
176_L	292_E	0.656	0.24
151_I	181_I	0.654	0.24
295_A	304_G	0.653	0.24
132_G	152_D	0.652	0.24
280_T	307_V	0.652	0.24
86_L	159_C	0.651	0.24
228_V	255_A	0.648	0.24
191_D	220_G	0.646	0.24
41_Q	45_A	0.645	0.24
181_I	265_C	0.645	0.24
69_E	287_E	0.644	0.23
85_N	241_D	0.642	0.23
207_E	213_K	0.641	0.23
132_G	151_I	0.639	0.23
115_L	223_V	0.639	0.23
80_E	99_V	0.638	0.23
135_Y	197_G	0.638	0.23
17_S	295_A	0.637	0.23
199_L	227_L	0.637	0.23
19_W	27_I	0.635	0.23
122_T	146_H	0.634	0.23
162_E	264_K	0.634	0.23
103_T	108_D	0.630	0.23
113_R	225_E	0.630	0.23
14_N	265_C	0.627	0.23
96_L	295_A	0.626	0.23
273_A	319_I	0.626	0.23
168_L	304_G	0.622	0.22
207_E	289_M	0.622	0.22
278_T	298_L	0.621	0.22
262_L	320_A	0.620	0.22
89_W	92_G	0.620	0.22
239_P	243_Y	0.619	0.22
66_E	250_Y	0.618	0.22
181_I	208_H	0.618	0.22
193_V	312_A	0.618	0.22
74_G	81_T	0.617	0.22
299_D	312_A	0.614	0.22
135_Y	153_P	0.613	0.22
40_K	44_N	0.612	0.22
280_T	299_D	0.612	0.22
13_K	18_H	0.611	0.22
147_L	165_R	0.609	0.22
53_K	172_Q	0.609	0.22
54_P	58_D	0.608	0.22
151_I	187_L	0.607	0.22
204_S	289_M	0.607	0.22
246_M	252_I	0.606	0.22
132_G	208_H	0.605	0.22
234_N	240_G	0.605	0.22
85_N	99_V	0.604	0.22
246_M	278_T	0.604	0.22
92_G	105_W	0.603	0.22
111_W	253_P	0.603	0.22
15_H	18_H	0.601	0.22
51_E	73_A	0.600	0.21
15_H	75_Q	0.600	0.21
133_S	295_A	0.598	0.21
41_Q	81_T	0.596	0.21
200_Y	248_N	0.596	0.21
104_E	110_K	0.594	0.21
21_E	28_A	0.594	0.21
169_G	303_P	0.593	0.21
19_W	24_P	0.592	0.21
257_A	260_N	0.591	0.21
193_V	270_I	0.591	0.21
135_Y	239_P	0.591	0.21
42_W	108_D	0.590	0.21
84_R	99_V	0.590	0.21
56_R	123_G	0.590	0.21
91_K	105_W	0.587	0.21
24_P	28_A	0.585	0.21
135_Y	225_E	0.582	0.21
18_H	100_N	0.581	0.21
125_T	252_I	0.581	0.21
274_D	317_V	0.581	0.21
25_A	33_E	0.580	0.21
142_G	212_L	0.580	0.21
132_G	238_V	0.575	0.20
195_S	199_L	0.574	0.20
187_L	215_Q	0.573	0.20
88_P	93_P	0.572	0.20
58_D	61_H	0.570	0.20
22_T	304_G	0.569	0.20
31_Q	45_A	0.568	0.20
66_E	292_E	0.568	0.20
74_G	80_E	0.568	0.20
65_A	168_L	0.568	0.20
14_N	22_T	0.566	0.20
178_P	196_M	0.565	0.20
186_A	301_H	0.565	0.20
102_D	105_W	0.564	0.20
64_T	68_E	0.563	0.20
107_S	205_P	0.563	0.20
105_W	153_P	0.562	0.20
28_A	51_E	0.560	0.20
13_K	20_L	0.559	0.20
13_K	280_T	0.558	0.20
39_F	265_C	0.557	0.20
44_N	81_T	0.556	0.20
214_D	272_I	0.555	0.20
209_L	222_L	0.554	0.19
240_G	257_A	0.554	0.19
138_W	251_F	0.552	0.19
153_P	200_Y	0.552	0.19
162_E	172_Q	0.549	0.19
281_E	303_P	0.549	0.19
76_I	304_G	0.549	0.19
114_V	245_Q	0.549	0.19
153_P	197_G	0.548	0.19
154_T	295_A	0.547	0.19
88_P	92_G	0.547	0.19
26_Q	187_L	0.545	0.19
87_M	291_T	0.545	0.19
287_E	290_V	0.545	0.19
111_W	194_F	0.545	0.19
169_G	264_K	0.544	0.19
131_C	216_L	0.541	0.19
301_H	307_V	0.541	0.19
107_S	110_K	0.538	0.19
135_Y	243_Y	0.538	0.19
288_W	313_P	0.538	0.19
31_Q	291_T	0.537	0.19
210_W	310_Y	0.536	0.19
206_L	264_K	0.535	0.19
227_L	244_A	0.535	0.19
163_A	238_V	0.531	0.19
25_A	188_K	0.530	0.18
44_N	68_E	0.530	0.18
89_W	93_P	0.529	0.18
24_P	48_F	0.529	0.18
44_N	48_F	0.528	0.18
279_T	303_P	0.528	0.18
71_L	76_I	0.527	0.18
58_D	62_S	0.527	0.18
292_E	304_G	0.526	0.18
14_N	21_E	0.526	0.18
263_K	318_L	0.526	0.18
83_M	113_R	0.525	0.18
93_P	105_W	0.522	0.18
92_G	239_P	0.520	0.18
119_S	259_K	0.520	0.18
281_E	321_R	0.520	0.18
14_N	125_T	0.520	0.18
230_D	234_N	0.518	0.18
105_W	110_K	0.516	0.18
72_S	304_G	0.515	0.18
154_T	247_R	0.515	0.18
285_R	290_V	0.515	0.18
34_Q	48_F	0.515	0.18
182_E	231_G	0.514	0.18
127_L	192_T	0.513	0.18
28_A	317_V	0.511	0.18
47_E	303_P	0.510	0.18
152_D	176_L	0.509	0.18
38_L	45_A	0.508	0.18
146_H	302_D	0.506	0.18
279_T	304_G	0.505	0.18
109_W	289_M	0.505	0.18
263_K	270_I	0.504	0.17
66_E	98_G	0.504	0.17
203_R	217_V	0.503	0.17
197_G	225_E	0.503	0.17
43_S	126_I	0.502	0.17
87_M	118_L	0.502	0.17
103_T	109_W	0.502	0.17
240_G	297_F	0.501	0.17
127_L	177_L	0.500	0.17

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
4p7cA	1	0.9845	100	0.457	Contact Map
4qnuA	2	1	100	0.503	Contact Map
3bkxA	2	0.7245	100	0.721	Contact Map
4ckbA	1	0.8978	100	0.738	Contact Map
2vdwA	1	0.743	100	0.744	Contact Map
3kkzA	2	0.709	100	0.748	Contact Map
3ocjA	1	0.7647	100	0.749	Contact Map
3f4kA	2	0.7337	100	0.751	Contact Map
2o57A	2	0.7709	100	0.754	Contact Map
3busA	1	0.7183	100	0.754	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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