TCDA - BACSU - GREMLIN Contacts

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TCDA - tRNA threonylcarbamoyladenosine dehydratase

UniProt:	O32037	Sequences: MLHQFSRNELAIGKEGLETLKNSTVAVLGVGGVGSFAAEALARSGVGRILLVDKDDVDITNVNRQLHALLSTVGQPKVDLMKARIADINPECEVIALKMFYTEETYEQFFDYGLDYVIDASDTICYKIHLMKECLKRDIPLISSMGAANKTDPTRFQIADISKTHTDPIAKVVRTKLRKEGIKKGVQVIFSDESPIVIREDVRKEVGNDEAKIRKAKMPPSSNAFVPSVAGLIMGGHVVMDLLKDIEIKRVKDK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	254 (235)
Sequences:	4638 (3066)
Seq/√Len:	200.0

ECOLI - TCDA THIF MOEB
BACSU - TCDA MOEB THIF
HALSA - Q9HST5
SULSO - Q980J4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
48_R	93_E	4.473	1.00
82_K	86_A	3.978	1.00
24_T	50_L	3.789	1.00
75_Q	83_A	3.674	1.00
71_S	87_D	3.649	1.00
48_R	95_I	3.247	1.00
117_V	134_C	3.205	1.00
9_E	14_K	3.170	1.00
37_A	118_I	3.137	1.00
24_T	48_R	2.853	1.00
237_H	240_M	2.844	1.00
76_P	98_K	2.766	1.00
27_V	38_A	2.704	1.00
118_I	238_V	2.514	1.00
38_A	85_I	2.502	1.00
144_S	234_M	2.371	1.00
42_A	85_I	2.337	1.00
82_K	96_A	2.337	1.00
26_A	114_L	2.336	1.00
79_D	98_K	2.214	1.00
85_I	92_C	2.192	1.00
131_M	141_L	2.169	1.00
164_T	167_D	2.121	1.00
79_D	96_A	2.112	1.00
67_H	81_M	2.088	1.00
50_L	114_L	2.078	1.00
116_Y	238_V	1.990	1.00
78_V	96_A	1.955	1.00
75_Q	79_D	1.930	1.00
8_N	17_L	1.856	1.00
26_A	52_V	1.834	1.00
76_P	79_D	1.789	1.00
20_L	239_V	1.774	1.00
4_Q	70_L	1.773	1.00
155_R	192_D	1.760	1.00
72_T	75_Q	1.758	1.00
176_K	180_E	1.750	1.00
133_E	137_R	1.745	1.00
112_Y	137_R	1.716	1.00
187_Q	237_H	1.716	1.00
130_L	141_L	1.684	1.00
18_E	22_N	1.660	1.00
56_D	76_P	1.640	1.00
121_S	126_Y	1.596	1.00
159_A	163_K	1.592	1.00
6_S	10_L	1.586	1.00
78_V	98_K	1.572	1.00
23_S	242_L	1.561	1.00
131_M	186_V	1.560	1.00
30_V	81_M	1.557	1.00
50_L	95_I	1.531	1.00
178_R	182_I	1.512	1.00
50_L	97_L	1.492	1.00
132_K	136_K	1.457	1.00
35_S	67_H	1.456	1.00
101_Y	106_Y	1.454	1.00
231_G	235_G	1.448	1.00
38_A	51_L	1.444	1.00
119_D	130_L	1.424	1.00
28_L	52_V	1.416	1.00
85_I	94_V	1.371	1.00
61_N	77_K	1.365	1.00
175_T	179_K	1.359	1.00
14_K	18_E	1.358	1.00
165_H	192_D	1.346	1.00
62_V	73_V	1.343	1.00
55_D	77_K	1.337	1.00
75_Q	80_L	1.317	1.00
179_K	182_I	1.303	1.00
36_F	39_E	1.296	1.00
79_D	83_A	1.290	1.00
229_V	233_I	1.275	1.00
12_I	17_L	1.270	1.00
57_V	67_H	1.225	1.00
32_G	227_P	1.216	1.00
44_S	224_A	1.203	1.00
89_N	92_C	1.184	1.00
152_D	155_R	1.172	1.00
27_V	41_L	1.164	1.00
42_A	92_C	1.159	1.00
24_T	95_I	1.153	1.00
18_E	21_K	1.149	1.00
49_I	92_C	1.146	1.00
228_S	232_L	1.146	1.00
19_T	23_S	1.144	1.00
192_D	195_P	1.139	1.00
132_K	180_E	1.137	1.00
129_H	133_E	1.123	1.00
133_E	136_K	1.120	1.00
35_S	66_L	1.110	1.00
101_Y	129_H	1.109	1.00
142_I	234_M	1.102	1.00
28_L	130_L	1.098	1.00
177_L	182_I	1.098	1.00
30_V	78_V	1.087	1.00
86_A	92_C	1.076	1.00
151_T	223_N	1.071	1.00
54_K	100_F	1.070	1.00
69_L	87_D	1.065	1.00
9_E	17_L	1.052	1.00
69_L	84_R	1.038	1.00
86_A	93_E	1.037	1.00
15_E	19_T	1.037	1.00
30_V	51_L	1.008	1.00
39_E	43_R	1.002	1.00
156_F	230_A	0.993	1.00
119_D	122_D	0.992	1.00
12_I	16_G	0.991	1.00
12_I	223_N	0.989	1.00
118_I	234_M	0.988	1.00
159_A	190_F	0.975	1.00
178_R	181_G	0.972	0.99
158_I	161_I	0.963	0.99
42_A	49_I	0.960	0.99
166_T	169_I	0.959	0.99
69_L	72_T	0.957	0.99
103_E	129_H	0.956	0.99
218_M	221_S	0.948	0.99
57_V	68_A	0.945	0.99
28_L	101_Y	0.941	0.99
82_K	94_V	0.938	0.99
12_I	151_T	0.937	0.99
128_I	132_K	0.937	0.99
107_E	133_E	0.922	0.99
169_I	174_R	0.916	0.99
38_A	81_M	0.914	0.99
158_I	189_I	0.914	0.99
151_T	230_A	0.907	0.99
5_F	89_N	0.903	0.99
8_N	44_S	0.898	0.99
59_I	73_V	0.892	0.99
37_A	234_M	0.889	0.99
170_A	173_V	0.886	0.99
62_V	70_L	0.885	0.99
19_T	244_K	0.884	0.99
80_L	83_A	0.883	0.99
17_L	21_K	0.879	0.99
123_T	126_Y	0.877	0.99
188_V	192_D	0.874	0.99
106_Y	133_E	0.873	0.99
131_M	143_S	0.866	0.99
25_V	116_Y	0.865	0.99
26_A	50_L	0.864	0.99
49_I	85_I	0.863	0.99
188_V	195_P	0.859	0.99
216_A	219_P	0.856	0.99
194_S	197_V	0.851	0.99
144_S	230_A	0.848	0.99
31_G	121_S	0.848	0.99
83_A	87_D	0.846	0.99
133_E	139_I	0.846	0.99
119_D	127_K	0.846	0.99
167_D	174_R	0.845	0.99
70_L	87_D	0.842	0.99
116_Y	241_D	0.842	0.99
41_L	49_I	0.836	0.98
35_S	81_M	0.835	0.98
16_G	23_S	0.833	0.98
176_K	179_K	0.832	0.98
62_V	72_T	0.827	0.98
110_F	139_I	0.827	0.98
163_K	168_P	0.826	0.98
20_L	47_G	0.826	0.98
165_H	168_P	0.825	0.98
211_A	214_R	0.821	0.98
36_F	66_L	0.815	0.98
153_P	236_G	0.800	0.98
193_E	196_I	0.797	0.98
13_G	16_G	0.791	0.98
131_M	135_L	0.790	0.98
154_T	233_I	0.788	0.98
36_F	228_S	0.787	0.98
61_N	65_Q	0.784	0.98
20_L	46_V	0.778	0.98
55_D	61_N	0.777	0.98
51_L	96_A	0.773	0.97
191_S	195_P	0.769	0.97
37_A	40_A	0.764	0.97
43_R	88_I	0.763	0.97
167_D	170_A	0.758	0.97
166_T	171_K	0.756	0.97
20_L	243_L	0.756	0.97
106_Y	129_H	0.752	0.97
34_G	65_Q	0.749	0.97
224_A	227_P	0.746	0.97
47_G	89_N	0.741	0.97
126_Y	129_H	0.740	0.97
44_S	239_V	0.738	0.97
31_G	34_G	0.738	0.97
226_V	229_V	0.738	0.97
162_S	185_G	0.735	0.97
57_V	80_L	0.730	0.96
72_T	84_R	0.724	0.96
107_E	137_R	0.720	0.96
233_I	236_G	0.717	0.96
110_F	137_R	0.717	0.96
214_R	218_M	0.714	0.96
188_V	191_S	0.713	0.96
187_Q	191_S	0.711	0.96
169_I	172_V	0.710	0.96
24_T	114_L	0.709	0.96
107_E	136_K	0.709	0.96
30_V	38_A	0.705	0.96
27_V	118_I	0.705	0.96
215_K	219_P	0.703	0.96
84_R	87_D	0.703	0.96
166_T	170_A	0.702	0.96
37_A	120_A	0.701	0.95
39_E	66_L	0.701	0.95
31_G	55_D	0.700	0.95
167_D	173_V	0.695	0.95
196_I	199_R	0.695	0.95
38_A	49_I	0.694	0.95
166_T	173_V	0.694	0.95
172_V	175_T	0.693	0.95
54_K	98_K	0.692	0.95
101_Y	133_E	0.686	0.95
170_A	174_R	0.682	0.95
40_A	232_L	0.678	0.95
217_K	222_S	0.678	0.95
164_T	168_P	0.677	0.95
199_R	203_R	0.674	0.94
55_D	60_T	0.672	0.94
24_T	113_G	0.670	0.94
166_T	174_R	0.670	0.94
168_P	172_V	0.668	0.94
25_V	46_V	0.665	0.94
127_K	143_S	0.665	0.94
213_I	217_K	0.665	0.94
169_I	173_V	0.664	0.94
33_V	144_S	0.664	0.94
151_T	196_I	0.662	0.94
199_R	202_V	0.662	0.94
208_N	211_A	0.662	0.94
186_V	193_E	0.662	0.94
31_G	222_S	0.658	0.94
27_V	34_G	0.657	0.94
8_N	12_I	0.656	0.94
168_P	173_V	0.654	0.93
55_D	122_D	0.648	0.93
127_K	145_M	0.647	0.93
4_Q	62_V	0.643	0.93
39_E	84_R	0.641	0.93
131_M	173_V	0.640	0.93
176_K	182_I	0.638	0.93
165_H	172_V	0.637	0.93
166_T	172_V	0.636	0.93
210_E	214_R	0.635	0.92
99_M	105_T	0.634	0.92
29_G	34_G	0.633	0.92
23_S	115_D	0.633	0.92
142_I	237_H	0.633	0.92
61_N	64_R	0.630	0.92
190_F	193_E	0.630	0.92
25_V	41_L	0.629	0.92
172_V	176_K	0.627	0.92
190_F	194_S	0.627	0.92
64_R	122_D	0.627	0.92
6_S	9_E	0.625	0.92
110_F	133_E	0.625	0.92
38_A	67_H	0.624	0.92
83_A	86_A	0.620	0.92
49_I	94_V	0.619	0.91
225_F	236_G	0.618	0.91
175_T	178_R	0.614	0.91
116_Y	187_Q	0.601	0.90
37_A	66_L	0.597	0.90
72_T	80_L	0.596	0.90
31_G	65_Q	0.595	0.90
33_V	37_A	0.595	0.90
5_F	10_L	0.595	0.90
209_D	213_I	0.595	0.90
56_D	98_K	0.592	0.90
110_F	113_G	0.592	0.90
196_I	200_E	0.585	0.89
115_D	139_I	0.584	0.89
37_A	41_L	0.583	0.89
159_A	162_S	0.578	0.88
163_K	167_D	0.578	0.88
36_F	43_R	0.574	0.88
166_T	194_S	0.573	0.88
31_G	120_A	0.572	0.88
147_A	230_A	0.570	0.88
197_V	200_E	0.568	0.88
64_R	222_S	0.567	0.88
110_F	114_L	0.567	0.88
6_S	12_I	0.563	0.87
213_I	216_A	0.562	0.87
122_D	127_K	0.561	0.87
79_D	82_K	0.561	0.87
193_E	197_V	0.560	0.87
188_V	193_E	0.559	0.87
158_I	162_S	0.557	0.87
158_I	237_H	0.556	0.87
198_I	203_R	0.553	0.86
165_H	169_I	0.553	0.86
161_I	168_P	0.551	0.86
116_Y	142_I	0.551	0.86
134_C	141_L	0.551	0.86
164_T	170_A	0.549	0.86
171_K	174_R	0.548	0.86
200_E	203_R	0.548	0.86
192_D	196_I	0.547	0.86
118_I	235_G	0.545	0.85
208_N	213_I	0.545	0.85
209_D	212_K	0.544	0.85
105_T	108_Q	0.543	0.85
212_K	215_K	0.543	0.85
116_Y	242_L	0.543	0.85
224_A	232_L	0.542	0.85
20_L	41_L	0.541	0.85
165_H	190_F	0.540	0.85
33_V	64_R	0.540	0.85
194_S	199_R	0.539	0.85
142_I	241_D	0.538	0.85
210_E	213_I	0.536	0.84
165_H	171_K	0.535	0.84
143_S	152_D	0.535	0.84
8_N	11_A	0.534	0.84
217_K	221_S	0.531	0.84
71_S	83_A	0.530	0.84
189_I	192_D	0.529	0.84
222_S	227_P	0.528	0.84
28_L	119_D	0.525	0.83
163_K	166_T	0.523	0.83
64_R	227_P	0.523	0.83
188_V	199_R	0.522	0.83
36_F	232_L	0.521	0.83
109_F	114_L	0.520	0.83
214_R	217_K	0.520	0.83
235_G	238_V	0.520	0.83
146_G	227_P	0.519	0.83
99_M	109_F	0.518	0.82
36_F	81_M	0.518	0.82
168_P	171_K	0.518	0.82
25_V	118_I	0.517	0.82
162_S	166_T	0.516	0.82
97_L	109_F	0.515	0.82
23_S	46_V	0.513	0.82
12_I	240_M	0.512	0.82
105_T	129_H	0.510	0.81
34_G	77_K	0.509	0.81
16_G	20_L	0.507	0.81
239_V	243_L	0.507	0.81
72_T	83_A	0.506	0.81
162_S	168_P	0.506	0.81
148_A	220_P	0.504	0.81
189_I	193_E	0.504	0.81
60_T	64_R	0.503	0.81
118_I	144_S	0.503	0.81
187_Q	241_D	0.500	0.80
142_I	238_V	0.500	0.80

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
4p22A	2	0.9646	100	0.205	Contact Map
4ii2A	1	0.9685	100	0.22	Contact Map
4nnjA	2	0.9764	100	0.221	Contact Map
1y8qA	1	0.9567	100	0.221	Contact Map
1tt5A	1	0.9882	100	0.229	Contact Map
1tt5B	1	0.9764	100	0.263	Contact Map
1y8qB	1	0.9449	100	0.276	Contact Map
2nvuB	1	0.9764	100	0.3	Contact Map
1zud1	2	0.8189	100	0.349	Contact Map
4d79A	2	0.9173	100	0.357	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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