GATD - HALSA - GREMLIN Contacts

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GATD - Glutamyl-tRNA(Gln) amidotransferase subunit D

UniProt:	Q9HP20	Sequences: MTADPGDRVRVTHGDASHEGVLVPSPSDDHLVVKLDSGYNVGVDTADADIDVLDADAVTVDGDTGEDAAGSTVEFDDDLPTIALISTGGTIASTVDYRTGAVTAQFDAEDVLRAVPDLAGRANYRGRVVANILSENMEPSIWQDLAAAVREEIEAGADGVVVMHGTDTMQFSASALSFMLETPVPVVFTGSQRSADRPSSDNVMNAVCAVEAAKSDVAEVMVCMHATESDDRCALHRGTRVRKTHTSRRDAFETVGATPLGYVDYDAASEAATADARGVTVEGAHAARGDATLDVASALEPAVELVKFTPGMNESLLAACEGSAGVVIEGTGLGHVHSDLTDTIGSLVDDGTTVVMTSQCLEGRVCDRVYDTGRDLLAAGVVEAGDTLPGTAKVKLMWALANADDPEAAMQESVAGALTTQSRPWTA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	427 (325)
Sequences:	1271 (853)
Seq/√Len:	47.3

ECOLI - ASPG1 ASPG2
BACSU - ASPG2 ASPG1
HALSA - GATD
SULSO - GATD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
172_S	188_F	6.782	1.00
307_K	329_E	6.355	1.00
180_L	186_V	6.232	1.00
405_D	408_A	4.337	1.00
86_S	92_A	4.260	1.00
81_T	123_N	4.190	1.00
176_L	188_F	4.098	1.00
345_G	349_D	3.864	1.00
236_H	241_V	3.763	1.00
222_V	241_V	3.264	1.00
355_V	410_M	3.182	1.00
318_A	343_T	3.140	1.00
125_R	157_A	2.983	1.00
405_D	409_A	2.966	1.00
219_E	237_R	2.930	1.00
129_V	148_A	2.844	1.00
147_A	297_S	2.703	1.00
306_V	317_L	2.670	1.00
150_R	295_V	2.501	1.00
219_E	260_L	2.448	1.00
177_S	239_T	2.438	1.00
318_A	346_S	2.370	1.00
329_E	389_P	2.366	1.00
368_R	373_G	2.329	1.00
85_I	129_V	2.305	1.00
143_Q	179_M	2.291	1.00
356_M	381_V	2.290	1.00
330_G	356_M	2.269	1.00
246_T	358_S	2.209	1.00
300_E	324_A	2.190	1.00
101_A	104_A	2.163	1.00
325_G	396_L	2.131	1.00
161_V	213_A	2.089	1.00
146_A	295_V	2.072	1.00
355_V	384_A	2.070	1.00
132_I	141_I	2.051	1.00
235_L	261_G	1.987	0.99
188_F	238_G	1.965	0.99
399_A	403_A	1.948	0.99
96_D	102_V	1.948	0.99
356_M	367_D	1.902	0.99
153_I	160_V	1.821	0.99
183_P	293_L	1.775	0.99
348_V	379_A	1.771	0.99
399_A	409_A	1.768	0.99
169_M	222_V	1.758	0.99
91_I	202_N	1.739	0.98
353_T	406_P	1.735	0.98
305_L	389_P	1.722	0.98
181_E	415_A	1.716	0.98
149_V	162_V	1.711	0.98
181_E	296_A	1.711	0.98
138_E	339_D	1.704	0.98
153_I	184_V	1.699	0.98
136_N	372_T	1.695	0.98
353_T	382_V	1.694	0.98
152_E	156_G	1.665	0.98
83_A	157_A	1.659	0.98
178_F	417_A	1.637	0.98
223_C	235_L	1.634	0.98
161_V	210_V	1.628	0.98
150_R	297_S	1.597	0.97
303_V	327_V	1.531	0.96
357_T	384_A	1.529	0.96
398_W	402_N	1.503	0.96
221_M	260_L	1.474	0.96
170_Q	390_G	1.472	0.95
346_S	350_D	1.442	0.95
186_V	351_G	1.442	0.95
109_E	113_R	1.440	0.95
256_G	386_D	1.432	0.95
127_R	148_A	1.427	0.95
181_E	294_D	1.420	0.94
96_D	103_T	1.383	0.94
164_H	172_S	1.383	0.94
201_D	243_K	1.381	0.94
140_S	301_P	1.375	0.93
374_R	377_L	1.374	0.93
95_V	197_R	1.363	0.93
357_T	389_P	1.362	0.93
189_T	224_M	1.362	0.93
187_V	221_M	1.350	0.93
139_P	311_G	1.347	0.93
91_I	191_S	1.326	0.92
242_R	389_P	1.322	0.92
307_K	389_P	1.318	0.92
241_V	358_S	1.314	0.92
173_A	241_V	1.302	0.91
167_D	370_Y	1.296	0.91
296_A	402_N	1.293	0.91
236_H	254_T	1.287	0.91
385_G	418_L	1.277	0.91
193_R	249_R	1.271	0.90
208_C	223_C	1.268	0.90
406_P	409_A	1.268	0.90
141_I	144_D	1.264	0.90
81_T	125_R	1.248	0.90
117_D	203_V	1.242	0.89
325_G	357_T	1.234	0.89
142_W	394_V	1.230	0.89
223_C	263_V	1.213	0.88
312_M	337_H	1.212	0.88
209_A	212_A	1.210	0.88
243_K	332_G	1.207	0.88
240_R	310_P	1.206	0.88
221_M	261_G	1.200	0.88
136_N	339_D	1.199	0.88
92_A	108_A	1.190	0.87
149_V	153_I	1.175	0.87
317_L	344_I	1.172	0.86
200_S	203_V	1.170	0.86
343_T	346_S	1.167	0.86
409_A	412_E	1.165	0.86
398_W	415_A	1.161	0.86
285_H	288_R	1.152	0.85
245_H	362_E	1.150	0.85
304_E	326_V	1.150	0.85
374_R	378_A	1.146	0.85
80_P	122_A	1.146	0.85
174_S	239_T	1.142	0.85
387_T	418_L	1.126	0.84
138_E	141_I	1.122	0.84
136_N	338_S	1.117	0.84
84_L	111_V	1.111	0.83
235_L	260_L	1.110	0.83
174_S	394_V	1.109	0.83
166_T	236_H	1.108	0.83
413_S	418_L	1.107	0.83
187_V	212_A	1.100	0.83
314_E	318_A	1.088	0.82
411_Q	418_L	1.087	0.82
316_L	320_C	1.084	0.82
286_A	289_G	1.079	0.81
192_Q	249_R	1.079	0.81
180_L	295_V	1.070	0.81
132_I	137_M	1.062	0.80
325_G	392_A	1.058	0.80
179_M	299_L	1.057	0.80
85_I	162_V	1.054	0.80
82_I	214_K	1.049	0.80
234_A	262_Y	1.042	0.79
286_A	293_L	1.042	0.79
389_P	392_A	1.041	0.79
85_I	127_R	1.040	0.79
153_I	182_T	1.039	0.79
244_T	253_E	1.015	0.77
308_F	354_V	1.012	0.77
173_A	392_A	1.009	0.77
79_L	123_N	1.007	0.77
201_D	332_G	1.007	0.77
149_V	176_L	1.003	0.76
160_V	184_V	1.002	0.76
225_H	250_D	0.999	0.76
125_R	152_E	0.982	0.75
391_T	394_V	0.978	0.75
212_A	267_A	0.955	0.73
237_R	260_L	0.943	0.72
88_G	165_G	0.943	0.72
159_G	185_P	0.943	0.72
212_A	223_C	0.943	0.72
193_R	199_S	0.941	0.72
404_D	407_E	0.937	0.71
312_M	317_L	0.930	0.71
262_Y	270_E	0.920	0.70
222_V	236_H	0.919	0.70
182_T	291_A	0.911	0.69
212_A	235_L	0.908	0.69
118_L	207_V	0.906	0.69
318_A	345_G	0.905	0.69
91_I	163_M	0.904	0.69
393_K	397_M	0.899	0.68
181_E	398_W	0.897	0.68
302_A	324_A	0.895	0.68
135_E	335_H	0.894	0.68
86_S	108_A	0.893	0.68
142_W	176_L	0.892	0.68
83_A	127_R	0.890	0.67
182_T	290_D	0.886	0.67
150_R	154_E	0.884	0.67
342_D	349_D	0.879	0.66
135_E	331_T	0.879	0.66
223_C	226_A	0.877	0.66
223_C	265_Y	0.876	0.66
355_V	396_L	0.873	0.66
106_F	128_V	0.871	0.66
356_M	376_L	0.869	0.66
84_L	406_P	0.864	0.65
190_G	201_D	0.857	0.65
190_G	243_K	0.856	0.64
137_M	188_F	0.854	0.64
373_G	377_L	0.854	0.64
143_Q	298_A	0.851	0.64
356_M	365_V	0.847	0.64
282_E	378_A	0.834	0.62
317_L	343_T	0.830	0.62
199_S	265_Y	0.827	0.62
305_L	393_K	0.826	0.62
221_M	235_L	0.817	0.61
142_W	310_P	0.816	0.61
142_W	164_H	0.813	0.60
157_A	184_V	0.813	0.60
211_E	215_S	0.811	0.60
284_A	288_R	0.810	0.60
328_I	344_I	0.810	0.60
133_L	251_A	0.805	0.60
344_I	381_V	0.804	0.60
191_S	246_T	0.804	0.60
178_F	239_T	0.801	0.59
162_V	344_I	0.799	0.59
250_D	336_V	0.796	0.59
303_V	392_A	0.791	0.58
212_A	330_G	0.790	0.58
342_D	346_S	0.789	0.58
306_V	320_C	0.788	0.58
303_V	393_K	0.782	0.57
302_A	315_S	0.779	0.57
286_A	291_A	0.775	0.57
135_E	189_T	0.775	0.57
285_H	291_A	0.765	0.56
137_M	245_H	0.762	0.55
348_V	351_G	0.759	0.55
248_R	340_L	0.755	0.55
308_F	328_I	0.754	0.55
304_E	323_S	0.754	0.55
173_A	222_V	0.752	0.54
122_A	214_K	0.751	0.54
298_A	401_A	0.750	0.54
225_H	241_V	0.749	0.54
89_G	165_G	0.749	0.54
84_L	210_V	0.748	0.54
179_M	297_S	0.748	0.54
366_C	369_V	0.747	0.54
204_M	208_C	0.745	0.54
133_L	224_M	0.744	0.54
147_A	150_R	0.742	0.53
294_D	324_A	0.742	0.53
174_S	238_G	0.742	0.53
304_E	347_L	0.742	0.53
137_M	172_S	0.739	0.53
330_G	365_V	0.738	0.53
135_E	224_M	0.737	0.53
380_G	383_E	0.735	0.53
191_S	196_D	0.734	0.53
283_G	286_A	0.733	0.53
317_L	340_L	0.731	0.52
202_N	267_A	0.728	0.52
306_V	354_V	0.727	0.52
158_D	184_V	0.725	0.52
86_S	93_S	0.723	0.52
303_V	337_H	0.721	0.51
87_T	358_S	0.720	0.51
84_L	129_V	0.719	0.51
190_G	332_G	0.718	0.51
199_S	330_G	0.717	0.51
378_A	408_A	0.717	0.51
170_Q	241_V	0.717	0.51
83_A	152_E	0.716	0.51
93_S	108_A	0.715	0.51
91_I	164_H	0.713	0.51
336_V	341_T	0.710	0.50
162_V	351_G	0.709	0.50
84_L	206_A	0.708	0.50
143_Q	401_A	0.706	0.50
113_R	419_T	0.706	0.50
171_F	245_H	0.704	0.50
149_V	160_V	0.703	0.50
284_A	289_G	0.702	0.49
169_M	190_G	0.700	0.49
310_P	390_G	0.699	0.49
133_L	238_G	0.699	0.49
240_R	386_D	0.699	0.49
282_E	286_A	0.699	0.49
359_Q	390_G	0.698	0.49
357_T	387_T	0.696	0.49
322_G	328_I	0.689	0.48
81_T	304_E	0.689	0.48
112_L	115_V	0.686	0.48
122_A	225_H	0.686	0.48
145_L	172_S	0.685	0.48
106_F	195_A	0.685	0.48
172_S	175_A	0.684	0.48
302_A	313_N	0.683	0.48
314_E	343_T	0.682	0.47
344_I	379_A	0.682	0.47
335_H	356_M	0.678	0.47
365_V	384_A	0.676	0.47
309_T	393_K	0.672	0.46
311_G	336_V	0.670	0.46
377_L	415_A	0.664	0.46
126_G	129_V	0.664	0.46
317_L	349_D	0.662	0.46
389_P	400_L	0.659	0.45
82_I	262_Y	0.657	0.45
399_A	406_P	0.657	0.45
147_A	151_E	0.652	0.45
312_M	340_L	0.652	0.45
331_T	335_H	0.651	0.44
201_D	224_M	0.651	0.44
360_C	390_G	0.648	0.44
224_M	332_G	0.647	0.44
136_N	193_R	0.646	0.44
357_T	392_A	0.645	0.44
347_L	354_V	0.643	0.44
326_V	347_L	0.643	0.44
376_L	381_V	0.642	0.44
94_T	107_D	0.641	0.43
244_T	361_L	0.640	0.43
343_T	413_S	0.640	0.43
367_D	373_G	0.640	0.43
254_T	311_G	0.640	0.43
287_A	290_D	0.639	0.43
113_R	287_A	0.638	0.43
289_G	346_S	0.638	0.43
413_S	417_A	0.638	0.43
115_V	122_A	0.638	0.43
192_Q	332_G	0.635	0.43
152_E	157_A	0.635	0.43
166_T	190_G	0.634	0.43
178_F	391_T	0.633	0.43
112_L	407_E	0.633	0.43
308_F	336_V	0.632	0.43
85_I	389_P	0.631	0.42
353_T	400_L	0.631	0.42
121_R	214_K	0.629	0.42
309_T	323_S	0.625	0.42
219_E	235_L	0.624	0.42
162_V	188_F	0.623	0.42
140_S	187_V	0.623	0.42
166_T	332_G	0.622	0.42
289_G	292_T	0.621	0.41
173_A	413_S	0.620	0.41
94_T	104_A	0.619	0.41
140_S	404_D	0.618	0.41
187_V	213_A	0.616	0.41
171_F	307_K	0.616	0.41
298_A	412_E	0.614	0.41
354_V	385_G	0.613	0.41
242_R	361_L	0.612	0.41
154_E	186_V	0.611	0.41
146_A	297_S	0.611	0.41
371_D	397_M	0.611	0.41
121_R	124_Y	0.609	0.40
132_I	331_T	0.608	0.40
310_P	386_D	0.607	0.40
150_R	180_L	0.606	0.40
222_V	374_R	0.606	0.40
408_A	412_E	0.606	0.40
409_A	415_A	0.606	0.40
325_G	353_T	0.604	0.40
166_T	250_D	0.604	0.40
95_V	225_H	0.603	0.40
134_S	165_G	0.602	0.40
296_A	299_L	0.602	0.40
316_L	319_A	0.601	0.40
132_I	329_E	0.598	0.39
162_V	411_Q	0.598	0.39
108_A	111_V	0.597	0.39
175_A	299_L	0.597	0.39
409_A	413_S	0.596	0.39
328_I	356_M	0.595	0.39
324_A	403_A	0.594	0.39
292_T	296_A	0.594	0.39
324_A	407_E	0.594	0.39
133_L	157_A	0.593	0.39
82_I	226_A	0.592	0.39
359_Q	370_Y	0.591	0.39
284_A	287_A	0.589	0.38
101_A	193_R	0.589	0.38
164_H	238_G	0.589	0.38
224_M	243_K	0.588	0.38
391_T	395_K	0.587	0.38
127_R	248_R	0.584	0.38
187_V	235_L	0.584	0.38
404_D	409_A	0.583	0.38
327_V	355_V	0.583	0.38
303_V	412_E	0.582	0.38
199_S	249_R	0.582	0.38
254_T	261_G	0.581	0.38
235_L	239_T	0.580	0.38
122_A	226_A	0.579	0.37
306_V	323_S	0.578	0.37
162_V	404_D	0.578	0.37
325_G	400_L	0.577	0.37
285_H	342_D	0.577	0.37
138_E	191_S	0.576	0.37
85_I	148_A	0.576	0.37
324_A	401_A	0.575	0.37
124_Y	191_S	0.574	0.37
151_E	362_E	0.573	0.37
109_E	124_Y	0.572	0.37
306_V	312_M	0.572	0.37
202_N	413_S	0.571	0.37
191_S	343_T	0.570	0.37
88_G	166_T	0.569	0.37
127_R	326_V	0.569	0.37
215_S	269_S	0.568	0.36
144_D	414_V	0.566	0.36
317_L	347_L	0.564	0.36
124_Y	161_V	0.563	0.36
330_G	333_L	0.563	0.36
199_S	267_A	0.562	0.36
82_I	218_A	0.559	0.36
180_L	238_G	0.558	0.36
263_V	267_A	0.557	0.35
250_D	378_A	0.556	0.35
332_G	335_H	0.556	0.35
85_I	144_D	0.556	0.35
298_A	419_T	0.554	0.35
384_A	392_A	0.553	0.35
310_P	395_K	0.552	0.35
354_V	382_V	0.550	0.35
264_D	267_A	0.548	0.35
288_R	291_A	0.548	0.35
300_E	306_V	0.548	0.35
335_H	370_Y	0.548	0.35
240_R	395_K	0.545	0.34
313_N	326_V	0.545	0.34
198_P	222_V	0.544	0.34
240_R	419_T	0.544	0.34
117_D	207_V	0.544	0.34
96_D	101_A	0.543	0.34
251_A	397_M	0.543	0.34
351_G	355_V	0.543	0.34
130_A	141_I	0.542	0.34
302_A	323_S	0.541	0.34
126_G	270_E	0.541	0.34
141_I	179_M	0.539	0.34
404_D	408_A	0.538	0.34
142_W	188_F	0.538	0.34
139_P	142_W	0.537	0.34
242_R	382_V	0.536	0.34
148_A	349_D	0.536	0.34
268_A	317_L	0.536	0.34
174_S	178_F	0.536	0.34
370_Y	376_L	0.535	0.33
128_V	141_I	0.534	0.33
90_T	134_S	0.533	0.33
297_S	396_L	0.532	0.33
160_V	330_G	0.532	0.33
370_Y	373_G	0.532	0.33
171_F	359_Q	0.531	0.33
249_R	333_L	0.531	0.33
166_T	243_K	0.531	0.33
183_P	287_A	0.530	0.33
200_S	358_S	0.530	0.33
191_S	265_Y	0.530	0.33
147_A	301_P	0.527	0.33
304_E	319_A	0.526	0.33
287_A	291_A	0.526	0.33
327_V	384_A	0.526	0.33
299_L	401_A	0.523	0.32
142_W	175_A	0.523	0.32
236_H	358_S	0.522	0.32
336_V	340_L	0.521	0.32
320_C	343_T	0.520	0.32
174_S	177_S	0.519	0.32
207_V	211_E	0.519	0.32
150_R	172_S	0.518	0.32
196_D	245_H	0.518	0.32
341_T	375_D	0.517	0.32
290_D	355_V	0.517	0.32
262_Y	381_V	0.516	0.32
81_T	158_D	0.516	0.32
204_M	327_V	0.516	0.32
169_M	264_D	0.515	0.32
348_V	404_D	0.514	0.32
292_T	405_D	0.513	0.32
382_V	399_A	0.511	0.31
114_A	339_D	0.510	0.31
82_I	127_R	0.509	0.31
111_V	188_F	0.509	0.31
215_S	387_T	0.508	0.31
187_V	239_T	0.508	0.31
158_D	352_T	0.508	0.31
99_T	103_T	0.507	0.31
127_R	152_E	0.507	0.31
390_G	395_K	0.506	0.31
395_K	417_A	0.504	0.31
144_D	151_E	0.503	0.31
149_V	186_V	0.503	0.31
372_T	418_L	0.502	0.31
143_Q	299_L	0.502	0.31
245_H	364_R	0.501	0.31
210_V	384_A	0.501	0.31
84_L	162_V	0.501	0.31
257_A	362_E	0.501	0.31
178_F	310_P	0.500	0.30
151_E	297_S	0.500	0.30

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
2d6fA	2	0.9461	100	0.137	Contact Map
1zq1A	2	0.9649	100	0.142	Contact Map
4q0mA	2	0.7447	100	0.302	Contact Map
1wlsA	2	0.7471	100	0.303	Contact Map
2himA	4	0.7541	100	0.312	Contact Map
4r8kA	3	0.7541	100	0.318	Contact Map
2wltA	4	0.7307	100	0.336	Contact Map
1nnsA	4	0.7377	100	0.338	Contact Map
3nxkA	4	0.7377	100	0.338	Contact Map
1wsaA	4	0.7237	100	0.338	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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