YDIO - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YDIO - Probable BsuMI modification methylase subunit YdiO

UniProt:	O34939	Sequences: MTNFILNENKQLSLAIEDENIENFYIDGTDLVRKIIRRSGSGVTSRVPVLSTQDLENKNLHELYDESWLRMKNRPNTELTTESINIADLFSGCGGLSLGVWEACRALGINPRFSFACDLNEAALSVYEKNFSPDFSLNESIEKHINGELGAPLTVEEQRIKDKVKKIDFILAGPPCQGHSDLNNHTRRKDPRNALLMRVSRVIELFQPSSVLVENVPGIIHDKSGSFKEFKNHLKTQGYYFDEIVLNAEKLGVSQARRRYFIFASKTPVSSLNQINEFYSTNSRPISWAISDLVENVGDDIFNTASEHSLENKRRIEYLFENNLFELPNSERPDCHRLKPHSYKSVYGRMYWDRPAPTITRGFGSTGQGRFVHSLLKRTITPHEAARIQFFPDFFNFGDLRRRQYQDVIGNAVPSKLSYLLALHQLR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	427 (327)
Sequences:	2142 (1631)
Seq/√Len:	90.2

ECOLI - DCM
BACSU - YDIO MTBP YDIP
SULSO - Q980M6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
100_V	422_A	5.114	1.00
387_R	393_D	5.048	1.00
198_R	201_R	4.221	1.00
211_V	264_A	4.029	1.00
168_D	209_S	3.863	1.00
102_E	419_Y	3.596	1.00
390_F	416_K	3.464	1.00
91_S	118_D	3.318	1.00
178_G	193_N	3.121	1.00
88_D	97_S	2.930	1.00
86_I	113_F	2.899	1.00
172_A	199_V	2.834	1.00
419_Y	423_L	2.827	1.00
100_V	171_L	2.702	1.00
351_Y	354_R	2.620	1.00
275_I	279_Y	2.516	1.00
380_I	385_A	2.486	1.00
217_P	258_R	2.454	1.00
240_Y	267_T	2.446	1.00
253_V	390_F	2.427	1.00
310_L	314_R	2.409	1.00
122_A	403_R	2.371	1.00
207_Q	266_K	2.363	1.00
86_I	109_I	2.326	1.00
292_D	387_R	2.251	1.00
275_I	278_F	2.240	1.00
391_F	412_A	2.235	1.00
287_S	353_D	2.168	1.00
219_I	260_Y	2.117	1.00
85_N	110_N	2.117	1.00
129_K	398_G	2.111	1.00
100_V	169_F	2.105	1.00
265_S	268_P	2.083	1.00
386_A	397_F	2.005	1.00
254_S	390_F	1.998	1.00
95_G	391_F	1.960	1.00
328_P	331_E	1.960	1.00
212_L	421_L	1.949	1.00
125_S	398_G	1.914	1.00
247_N	250_K	1.906	1.00
118_D	124_L	1.904	1.00
378_R	384_E	1.893	1.00
363_F	385_A	1.870	1.00
122_A	400_L	1.850	1.00
89_L	170_I	1.840	1.00
126_V	408_V	1.804	1.00
383_H	386_A	1.789	1.00
120_N	406_Q	1.784	1.00
131_F	395_F	1.768	1.00
129_K	396_N	1.765	1.00
287_S	352_W	1.752	1.00
84_I	109_I	1.740	1.00
416_K	419_Y	1.736	1.00
203_I	211_V	1.703	1.00
352_W	375_L	1.692	1.00
286_I	388_I	1.689	1.00
247_N	256_A	1.672	1.00
248_A	417_L	1.657	1.00
208_P	239_Y	1.654	1.00
99_G	103_A	1.638	1.00
254_S	289_A	1.632	1.00
227_F	262_I	1.621	1.00
201_R	205_L	1.613	1.00
311_E	315_R	1.588	1.00
220_I	260_Y	1.586	1.00
85_N	114_S	1.580	1.00
212_L	425_Q	1.576	1.00
400_L	403_R	1.561	1.00
178_G	190_D	1.554	1.00
414_P	417_L	1.549	1.00
352_W	374_S	1.548	1.00
86_I	169_F	1.519	1.00
98_L	392_P	1.497	1.00
356_A	388_I	1.495	1.00
399_D	408_V	1.468	1.00
350_M	380_I	1.449	0.99
251_L	275_I	1.437	0.99
317_E	377_K	1.405	0.99
382_P	404_Q	1.376	0.99
292_D	393_D	1.372	0.99
284_R	288_W	1.370	0.99
289_A	293_L	1.365	0.99
120_N	123_A	1.362	0.99
416_K	420_L	1.361	0.99
174_P	213_V	1.352	0.99
103_A	422_A	1.352	0.99
314_R	317_E	1.330	0.99
146_N	205_L	1.322	0.99
210_S	425_Q	1.320	0.99
162_D	167_I	1.315	0.99
121_E	125_S	1.315	0.99
266_K	269_V	1.312	0.99
248_A	253_V	1.309	0.99
323_N	326_E	1.305	0.99
140_S	143_K	1.303	0.99
166_K	209_S	1.301	0.99
177_Q	192_R	1.299	0.99
85_N	168_D	1.289	0.99
89_L	117_C	1.283	0.99
91_S	116_A	1.278	0.99
390_F	415_S	1.274	0.99
139_E	143_K	1.273	0.99
96_L	173_G	1.269	0.99
204_E	237_Q	1.267	0.99
210_S	265_S	1.267	0.99
98_L	131_F	1.265	0.99
103_A	108_G	1.258	0.98
404_Q	409_I	1.258	0.98
248_A	414_P	1.257	0.98
177_Q	411_N	1.239	0.98
142_E	198_R	1.236	0.98
329_N	332_R	1.233	0.98
88_D	91_S	1.232	0.98
227_F	243_E	1.222	0.98
234_L	264_A	1.220	0.98
169_F	210_S	1.219	0.98
272_L	275_I	1.214	0.98
202_V	206_F	1.200	0.98
249_E	283_S	1.198	0.98
98_L	395_F	1.193	0.98
196_L	230_F	1.190	0.98
100_V	212_L	1.176	0.98
253_V	416_K	1.176	0.98
124_L	128_E	1.153	0.97
116_A	127_Y	1.137	0.97
256_A	354_R	1.133	0.97
399_D	404_Q	1.130	0.97
223_K	226_S	1.125	0.97
359_I	388_I	1.116	0.97
250_K	283_S	1.115	0.97
316_I	319_L	1.114	0.97
97_S	131_F	1.108	0.97
246_L	261_F	1.103	0.96
303_N	306_S	1.098	0.96
313_K	317_E	1.097	0.96
349_R	373_H	1.094	0.96
249_E	256_A	1.091	0.96
209_S	269_V	1.091	0.96
274_Q	277_E	1.087	0.96
232_N	236_T	1.084	0.96
196_L	233_H	1.082	0.96
312_N	316_I	1.077	0.96
98_L	102_E	1.070	0.96
308_H	312_N	1.062	0.96
124_L	138_N	1.058	0.96
124_L	136_S	1.051	0.95
324_L	327_L	1.050	0.95
276_N	279_Y	1.049	0.95
217_P	245_V	1.035	0.95
235_K	267_T	1.034	0.95
93_C	408_V	1.025	0.95
174_P	199_V	1.023	0.95
109_I	169_F	1.022	0.95
99_G	422_A	1.019	0.95
219_I	230_F	1.018	0.94
128_E	138_N	1.012	0.94
87_A	170_I	1.005	0.94
309_S	312_N	1.003	0.94
323_N	327_L	0.996	0.94
167_I	170_I	0.988	0.94
321_E	352_W	0.986	0.93
83_S	110_N	0.982	0.93
261_F	417_L	0.976	0.93
303_N	308_H	0.976	0.93
103_A	419_Y	0.959	0.93
170_I	206_F	0.955	0.92
87_A	115_F	0.955	0.92
308_H	316_I	0.953	0.92
146_N	202_V	0.952	0.92
211_V	234_L	0.951	0.92
390_F	420_L	0.948	0.92
91_S	124_L	0.948	0.92
350_M	356_A	0.947	0.92
302_F	404_Q	0.947	0.92
251_L	277_E	0.946	0.92
98_L	415_S	0.944	0.92
235_K	240_Y	0.944	0.92
247_N	258_R	0.943	0.92
115_F	118_D	0.934	0.92
95_G	99_G	0.929	0.91
86_I	171_L	0.929	0.91
348_G	369_G	0.927	0.91
109_I	422_A	0.926	0.91
117_C	202_V	0.923	0.91
200_S	233_H	0.914	0.91
356_A	359_I	0.906	0.90
364_G	405_Y	0.899	0.90
362_G	366_T	0.898	0.90
113_F	116_A	0.895	0.90
103_A	423_L	0.894	0.90
362_G	365_S	0.890	0.89
125_S	128_E	0.884	0.89
118_D	123_A	0.883	0.89
98_L	101_W	0.881	0.89
363_F	368_Q	0.879	0.89
93_C	126_V	0.875	0.89
209_S	266_K	0.873	0.89
123_A	411_N	0.859	0.88
231_K	243_E	0.856	0.88
286_I	290_I	0.856	0.88
97_S	113_F	0.855	0.87
324_L	333_P	0.853	0.87
174_P	178_G	0.850	0.87
248_A	261_F	0.846	0.87
308_H	313_K	0.844	0.87
345_S	371_F	0.840	0.87
312_N	315_R	0.838	0.86
294_V	376_L	0.838	0.86
199_V	203_I	0.837	0.86
110_N	113_F	0.831	0.86
382_P	405_Y	0.828	0.86
101_W	131_F	0.827	0.86
261_F	421_L	0.827	0.86
99_G	418_S	0.820	0.85
289_A	387_R	0.817	0.85
231_K	241_F	0.815	0.85
383_H	397_F	0.814	0.85
362_G	368_Q	0.814	0.85
231_K	235_K	0.812	0.85
397_F	409_I	0.808	0.84
118_D	136_S	0.808	0.84
305_A	381_T	0.808	0.84
349_R	361_R	0.808	0.84
85_N	167_I	0.807	0.84
290_I	293_L	0.803	0.84
255_Q	389_Q	0.800	0.84
88_D	95_G	0.797	0.84
385_A	405_Y	0.794	0.83
212_L	263_F	0.792	0.83
359_I	385_A	0.791	0.83
238_G	267_T	0.791	0.83
363_F	369_G	0.787	0.83
127_Y	131_F	0.786	0.83
348_G	370_R	0.786	0.83
361_R	366_T	0.784	0.83
233_H	237_Q	0.783	0.82
203_I	264_A	0.780	0.82
306_S	316_I	0.779	0.82
108_G	132_S	0.778	0.82
290_I	352_W	0.778	0.82
361_R	406_Q	0.773	0.82
200_S	234_L	0.772	0.82
302_F	409_I	0.771	0.81
295_E	299_D	0.769	0.81
227_F	231_K	0.769	0.81
126_V	399_D	0.768	0.81
311_E	314_R	0.762	0.81
413_V	418_S	0.761	0.81
95_G	415_S	0.759	0.80
285_P	288_W	0.758	0.80
96_L	418_S	0.758	0.80
183_N	365_S	0.757	0.80
312_N	372_V	0.755	0.80
95_G	412_A	0.755	0.80
403_R	406_Q	0.755	0.80
365_S	368_Q	0.749	0.80
361_R	369_G	0.748	0.79
318_Y	328_P	0.747	0.79
346_V	363_F	0.743	0.79
171_L	212_L	0.743	0.79
314_R	330_S	0.741	0.79
200_S	230_F	0.740	0.79
88_D	383_H	0.739	0.79
285_P	289_A	0.737	0.78
315_R	319_L	0.737	0.78
97_S	116_A	0.736	0.78
389_Q	412_A	0.735	0.78
359_I	380_I	0.733	0.78
253_V	417_L	0.733	0.78
116_A	134_D	0.733	0.78
335_C	338_L	0.730	0.78
366_T	372_V	0.730	0.78
420_L	423_L	0.729	0.78
343_Y	347_Y	0.724	0.77
409_I	414_P	0.724	0.77
86_I	97_S	0.722	0.77
261_F	414_P	0.721	0.77
146_N	245_V	0.720	0.77
241_F	264_A	0.718	0.77
246_L	251_L	0.716	0.76
270_S	273_N	0.716	0.76
142_E	145_I	0.710	0.76
88_D	391_F	0.709	0.76
181_D	218_G	0.707	0.76
91_S	127_Y	0.707	0.76
162_D	165_K	0.706	0.75
118_D	127_Y	0.706	0.75
86_I	100_V	0.704	0.75
90_F	174_P	0.701	0.75
196_L	405_Y	0.701	0.75
99_G	413_V	0.700	0.75
174_P	193_N	0.697	0.75
166_K	206_F	0.696	0.74
380_I	388_I	0.694	0.74
204_E	236_T	0.694	0.74
383_H	395_F	0.694	0.74
93_C	395_F	0.693	0.74
88_D	171_L	0.692	0.74
114_S	167_I	0.691	0.74
132_S	135_F	0.691	0.74
178_G	196_L	0.686	0.73
87_A	213_V	0.685	0.73
197_M	229_E	0.683	0.73
326_E	331_E	0.683	0.73
165_K	206_F	0.680	0.73
182_L	405_Y	0.677	0.72
208_P	266_K	0.676	0.72
300_D	303_N	0.674	0.72
382_P	409_I	0.672	0.72
284_R	289_A	0.670	0.72
212_L	261_F	0.670	0.72
90_F	141_I	0.669	0.71
121_E	138_N	0.669	0.71
383_H	387_R	0.666	0.71
320_F	349_R	0.666	0.71
276_N	280_S	0.665	0.71
127_Y	134_D	0.665	0.71
96_L	171_L	0.662	0.71
306_S	312_N	0.662	0.71
325_F	330_S	0.661	0.71
90_F	378_R	0.661	0.71
359_I	371_F	0.656	0.70
343_Y	346_V	0.656	0.70
204_E	233_H	0.654	0.70
102_E	392_P	0.654	0.70
338_L	343_Y	0.652	0.70
97_S	127_Y	0.650	0.69
227_F	230_F	0.649	0.69
305_A	308_H	0.643	0.68
418_S	422_A	0.643	0.68
94_G	127_Y	0.638	0.68
101_W	113_F	0.638	0.68
114_S	425_Q	0.637	0.68
279_Y	282_N	0.636	0.68
342_S	346_V	0.633	0.67
328_P	332_R	0.626	0.66
275_I	283_S	0.625	0.66
369_G	372_V	0.624	0.66
325_F	344_K	0.623	0.66
166_K	266_K	0.622	0.66
324_L	328_P	0.621	0.66
307_E	313_K	0.620	0.66
118_D	290_I	0.619	0.66
116_A	136_S	0.617	0.65
360_T	367_G	0.616	0.65
308_H	311_E	0.616	0.65
145_I	201_R	0.616	0.65
339_K	343_Y	0.614	0.65
236_T	288_W	0.613	0.65
265_S	271_S	0.611	0.65
370_R	373_H	0.606	0.64
163_K	241_F	0.606	0.64
246_L	417_L	0.603	0.64
173_G	387_R	0.600	0.63
244_I	274_Q	0.599	0.63
338_L	341_H	0.598	0.63
201_R	204_E	0.597	0.63
176_C	180_S	0.597	0.63
113_F	127_Y	0.596	0.63
90_F	195_L	0.596	0.63
167_I	206_F	0.596	0.63
349_R	374_S	0.596	0.63
85_N	166_K	0.595	0.62
286_I	374_S	0.595	0.62
363_F	366_T	0.595	0.62
197_M	233_H	0.594	0.62
279_Y	284_R	0.593	0.62
278_F	281_T	0.593	0.62
406_Q	409_I	0.593	0.62
345_S	363_F	0.592	0.62
369_G	373_H	0.590	0.62
170_I	202_V	0.588	0.62
383_H	393_D	0.587	0.61
362_G	371_F	0.586	0.61
386_A	412_A	0.585	0.61
295_E	298_G	0.584	0.61
277_E	281_T	0.584	0.61
227_F	260_Y	0.583	0.61
345_S	368_Q	0.582	0.61
161_K	164_V	0.579	0.60
248_A	408_V	0.578	0.60
218_G	260_Y	0.577	0.60
171_L	422_A	0.577	0.60
331_E	334_D	0.577	0.60
330_S	333_P	0.576	0.60
287_S	291_S	0.576	0.60
261_F	418_S	0.575	0.60
191_P	233_H	0.575	0.60
92_G	411_N	0.575	0.60
339_K	345_S	0.574	0.60
359_I	364_G	0.574	0.60
342_S	345_S	0.572	0.59
178_G	194_A	0.571	0.59
350_M	357_P	0.571	0.59
337_R	341_H	0.570	0.59
288_W	291_S	0.568	0.59
261_F	352_W	0.568	0.59
251_L	417_L	0.567	0.59
341_H	345_S	0.566	0.59
87_A	167_I	0.565	0.59
170_I	211_V	0.565	0.59
312_N	346_V	0.564	0.58
295_E	300_D	0.563	0.58
170_I	203_I	0.561	0.58
110_N	114_S	0.561	0.58
96_L	212_L	0.560	0.58
126_V	386_A	0.558	0.58
249_E	355_P	0.557	0.57
240_Y	268_P	0.555	0.57
325_F	332_R	0.553	0.57
88_D	386_A	0.551	0.57
324_L	345_S	0.550	0.57
96_L	413_V	0.549	0.56
102_E	415_S	0.549	0.56
287_S	375_L	0.548	0.56
332_R	338_L	0.547	0.56
324_L	329_N	0.547	0.56
234_L	238_G	0.547	0.56
293_L	376_L	0.546	0.56
137_L	144_H	0.545	0.56
91_S	97_S	0.545	0.56
240_Y	272_L	0.545	0.56
173_G	180_S	0.544	0.56
246_L	421_L	0.543	0.56
320_F	326_E	0.541	0.55
363_F	371_F	0.541	0.55
362_G	367_G	0.541	0.55
323_N	332_R	0.541	0.55
199_V	211_V	0.541	0.55
190_D	220_I	0.540	0.55
183_N	260_Y	0.540	0.55
362_G	405_Y	0.539	0.55
145_I	202_V	0.539	0.55
323_N	344_K	0.539	0.55
253_V	414_P	0.538	0.55
184_N	258_R	0.536	0.55
360_T	370_R	0.535	0.54
182_L	365_S	0.534	0.54
222_D	225_G	0.533	0.54
368_Q	372_V	0.533	0.54
293_L	387_R	0.533	0.54
346_V	362_G	0.531	0.54
201_R	233_H	0.531	0.54
90_F	172_A	0.531	0.54
248_A	256_A	0.531	0.54
169_F	422_A	0.531	0.54
145_I	198_R	0.530	0.54
176_C	259_R	0.529	0.54
95_G	408_V	0.529	0.54
124_L	127_Y	0.529	0.54
315_R	331_E	0.528	0.54
349_R	377_K	0.527	0.53
220_I	243_E	0.526	0.53
250_K	258_R	0.524	0.53
161_K	166_K	0.523	0.53
346_V	370_R	0.522	0.53
122_A	125_S	0.522	0.53
389_Q	414_P	0.522	0.53
190_D	218_G	0.521	0.53
379_T	385_A	0.521	0.53
282_N	285_P	0.520	0.52
323_N	329_N	0.520	0.52
287_S	351_Y	0.520	0.52
114_S	164_V	0.519	0.52
348_G	363_F	0.518	0.52
249_E	258_R	0.517	0.52
346_V	368_Q	0.516	0.52
86_I	108_G	0.516	0.52
85_N	109_I	0.516	0.52
347_Y	360_T	0.516	0.52
172_A	179_H	0.514	0.52
255_Q	414_P	0.513	0.51
363_F	405_Y	0.512	0.51
200_S	264_A	0.512	0.51
391_F	395_F	0.510	0.51
172_A	422_A	0.510	0.51
385_A	409_I	0.510	0.51
314_R	318_Y	0.510	0.51
360_T	369_G	0.509	0.51
348_G	357_P	0.509	0.51
127_Y	395_F	0.509	0.51
182_L	185_H	0.506	0.51
305_A	313_K	0.505	0.50
253_V	420_L	0.504	0.50
176_C	384_E	0.503	0.50
243_E	260_Y	0.503	0.50
381_T	386_A	0.503	0.50
316_I	372_V	0.502	0.50
172_A	213_V	0.500	0.50
235_K	241_F	0.500	0.50

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
3swrA	1	0.9391	100	0.223	Contact Map
4ft4B	1	0.904	100	0.235	Contact Map
4wxxA	1	0.9133	100	0.261	Contact Map
3g7uA	1	0.7283	100	0.293	Contact Map
4dkjA	1	0.7283	100	0.313	Contact Map
3me5A	1	0.8361	100	0.315	Contact Map
3qv2A	1	0.7143	100	0.321	Contact Map
2c7pA	1	0.7424	100	0.324	Contact Map
4h0nA	1	0.7213	100	0.333	Contact Map
1g55A	1	0.6932	100	0.336	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.

Page generated in 0.0102 seconds.