GPDA - BACSU - GREMLIN Contacts

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GPDA - Glycerol-3-phosphate dehydrogenase [NAD(P)+]

UniProt:	P46919	Sequences: MKKVTMLGAGSWGTALALVLTDNGNEVCVWAHRADLIHQINELHENKDYLPNVKLSTSIKGTTDMKEAVSDADVIIVAVPTKAIREVLRQAVPFITKKAVFVHVSKGIEPDSLLRISEIMEIELPSDVRKDIVVLSGPSHAEEVGLRHPTTVTASSKSMRAAEEVQDLFINHNFRVYTNPDIIGVEIGGALKNIIALAAGITDGLGYGDNAKAALITRGLAEIARLGTKMGGNPLTFSGLTGVGDLIVTCTSVHSRNWRAGNLLGKGYKLEDVLEEMGMVVEGVRTTKAAYQLSKKYDVKMPITEALHQVLFNGQKVETAVESLMARGKTHEMEDLVNTFENQVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	345 (327)
Sequences:	4245 (2741)
Seq/√Len:	151.6

ECOLI - GPDA
BACSU - GPDA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
89_R	123_E	3.370	1.00
227_G	237_F	3.365	1.00
62_T	68_A	3.328	1.00
45_E	52_N	3.264	1.00
31_A	37_I	3.075	1.00
114_L	122_I	3.059	1.00
309_Q	313_N	2.813	1.00
139_S	152_V	2.803	1.00
34_A	38_H	2.657	1.00
136_S	185_V	2.625	1.00
78_A	104_V	2.573	1.00
38_H	42_E	2.547	1.00
5_T	72_A	2.527	1.00
3_K	26_E	2.509	1.00
198_A	307_L	2.454	1.00
18_L	56_S	2.407	1.00
64_D	67_E	2.380	1.00
263_L	268_Y	2.375	1.00
41_N	61_G	2.351	1.00
191_L	290_A	2.343	1.00
268_Y	276_E	2.323	1.00
85_R	109_E	2.261	1.00
271_E	275_E	2.190	1.00
16_L	104_V	2.139	1.00
12_W	144_V	2.129	1.00
295_K	305_E	2.100	1.00
147_R	173_N	2.091	1.00
45_E	54_K	2.058	1.00
316_K	319_T	2.051	1.00
22_D	147_R	2.041	1.00
5_T	68_A	2.022	1.00
39_Q	47_K	2.004	1.00
152_V	174_F	1.992	1.00
140_H	248_V	1.955	1.00
121_E	157_K	1.952	1.00
269_K	272_D	1.932	1.00
306_A	320_A	1.921	1.00
9_A	31_A	1.852	1.00
37_I	61_G	1.808	1.00
260_A	281_V	1.799	1.00
291_Y	295_K	1.776	1.00
203_D	212_K	1.759	1.00
88_L	120_M	1.756	1.00
262_N	266_K	1.755	1.00
170_I	329_K	1.743	1.00
40_I	61_G	1.738	1.00
156_S	162_A	1.738	1.00
291_Y	308_H	1.726	1.00
309_Q	315_Q	1.702	1.00
188_G	241_T	1.695	1.00
308_H	312_F	1.687	1.00
39_Q	43_L	1.670	1.00
301_M	304_T	1.656	1.00
258_W	262_N	1.653	1.00
315_Q	320_A	1.650	1.00
74_V	100_V	1.649	1.00
294_S	301_M	1.649	1.00
55_L	59_I	1.644	1.00
21_T	59_I	1.639	1.00
11_S	279_M	1.606	1.00
85_R	114_L	1.601	1.00
133_V	156_S	1.595	1.00
74_V	165_V	1.587	1.00
315_Q	323_S	1.582	1.00
287_T	307_L	1.578	1.00
159_M	163_E	1.570	1.00
39_Q	45_E	1.568	1.00
227_G	232_G	1.560	1.00
133_V	161_A	1.560	1.00
81_T	116_I	1.554	1.00
230_M	297_Y	1.552	1.00
268_Y	272_D	1.547	1.00
139_S	150_T	1.514	1.00
86_E	90_Q	1.505	1.00
74_V	168_L	1.499	1.00
16_L	76_I	1.478	1.00
201_I	310_V	1.474	1.00
143_E	210_N	1.472	1.00
34_A	63_T	1.467	1.00
26_E	60_K	1.467	1.00
20_L	169_F	1.456	1.00
291_Y	305_E	1.450	1.00
85_R	122_I	1.446	1.00
216_I	247_I	1.440	1.00
46_N	49_Y	1.436	1.00
69_V	91_A	1.435	1.00
180_P	233_N	1.424	1.00
133_V	165_V	1.422	1.00
84_I	116_I	1.412	1.00
100_V	161_A	1.405	1.00
53_V	146_L	1.404	1.00
19_V	174_F	1.402	1.00
253_V	262_N	1.390	1.00
291_Y	304_T	1.388	1.00
66_K	94_F	1.385	1.00
195_I	219_G	1.360	1.00
205_L	317_V	1.331	1.00
44_H	57_T	1.327	1.00
226_L	293_L	1.327	1.00
224_A	228_T	1.317	1.00
120_M	132_I	1.311	1.00
21_T	58_S	1.299	1.00
263_L	273_V	1.298	1.00
33_R	48_D	1.296	1.00
288_K	312_F	1.295	1.00
102_V	165_V	1.292	1.00
9_A	29_V	1.291	1.00
277_M	281_V	1.288	1.00
220_L	243_V	1.287	1.00
43_L	47_K	1.281	1.00
62_T	67_E	1.277	1.00
22_D	173_N	1.273	1.00
54_K	57_T	1.271	1.00
76_I	169_F	1.263	1.00
28_C	62_T	1.252	1.00
154_A	165_V	1.252	1.00
259_R	278_G	1.247	1.00
23_N	171_N	1.244	1.00
205_L	318_E	1.241	1.00
140_H	254_H	1.230	1.00
44_H	61_G	1.221	1.00
53_V	145_G	1.221	1.00
115_R	118_E	1.211	1.00
116_I	119_I	1.205	1.00
203_D	258_W	1.193	1.00
142_E	254_H	1.190	1.00
114_L	118_E	1.181	1.00
41_N	44_H	1.165	1.00
3_K	28_C	1.165	1.00
142_E	146_L	1.150	1.00
270_L	284_V	1.147	1.00
226_L	230_M	1.146	1.00
77_V	120_M	1.146	1.00
86_E	89_R	1.145	1.00
109_E	112_S	1.142	1.00
18_L	147_R	1.134	1.00
229_K	297_Y	1.133	1.00
101_F	124_L	1.131	1.00
85_R	123_E	1.125	1.00
41_N	60_K	1.114	0.99
74_V	102_V	1.114	0.99
81_T	286_T	1.112	0.99
226_L	301_M	1.110	0.99
260_A	273_V	1.101	0.99
18_L	22_D	1.099	0.99
260_A	284_V	1.094	0.99
77_V	88_L	1.093	0.99
84_I	105_S	1.093	0.99
134_V	182_I	1.093	0.99
263_L	266_K	1.086	0.99
155_S	185_V	1.086	0.99
17_A	59_I	1.078	0.99
273_V	277_M	1.075	0.99
131_D	158_S	1.074	0.99
292_Q	295_K	1.074	0.99
65_M	91_A	1.072	0.99
75_I	99_A	1.066	0.99
14_T	55_L	1.063	0.99
260_A	270_L	1.057	0.99
306_A	323_S	1.054	0.99
37_I	63_T	1.051	0.99
36_L	40_I	1.050	0.99
14_T	46_N	1.047	0.99
308_H	313_N	1.040	0.99
319_T	322_E	1.032	0.99
28_C	71_D	1.029	0.99
160_R	163_E	1.028	0.99
76_I	104_V	1.023	0.99
37_I	41_N	1.010	0.99
263_L	276_E	1.008	0.99
306_A	315_Q	1.008	0.99
69_V	75_I	1.002	0.99
148_H	211_A	1.001	0.99
82_K	285_R	0.989	0.99
187_I	191_L	0.984	0.99
159_M	180_P	0.982	0.99
30_W	65_M	0.981	0.99
300_K	327_R	0.978	0.99
209_D	254_H	0.976	0.99
153_T	179_N	0.974	0.99
197_L	260_A	0.964	0.98
40_I	55_L	0.963	0.98
35_D	38_H	0.960	0.98
77_V	91_A	0.960	0.98
33_R	49_Y	0.958	0.98
209_D	252_S	0.957	0.98
309_Q	314_G	0.956	0.98
270_L	311_L	0.954	0.98
36_L	39_Q	0.952	0.98
154_A	176_V	0.950	0.98
162_A	178_T	0.950	0.98
269_K	273_V	0.947	0.98
87_V	90_Q	0.947	0.98
50_L	145_G	0.946	0.98
82_K	110_P	0.944	0.98
96_T	99_A	0.943	0.98
195_I	223_I	0.943	0.98
109_E	119_I	0.941	0.98
92_V	124_L	0.941	0.98
221_A	225_R	0.937	0.98
3_K	71_D	0.936	0.98
152_V	176_V	0.933	0.98
113_L	296_K	0.931	0.98
103_H	120_M	0.930	0.98
111_D	292_Q	0.927	0.98
259_R	263_L	0.925	0.98
32_H	83_A	0.923	0.98
27_V	59_I	0.913	0.98
228_T	234_P	0.913	0.98
19_V	23_N	0.908	0.98
287_T	311_L	0.901	0.98
33_R	36_L	0.901	0.98
4_V	168_L	0.898	0.98
288_K	292_Q	0.895	0.98
73_D	98_K	0.895	0.98
85_R	119_I	0.892	0.97
158_S	161_A	0.892	0.97
115_R	183_I	0.892	0.97
113_L	292_Q	0.890	0.97
60_K	67_E	0.886	0.97
167_D	329_K	0.878	0.97
272_D	276_E	0.872	0.97
198_A	215_L	0.872	0.97
288_K	313_N	0.869	0.97
195_I	304_T	0.864	0.97
28_C	60_K	0.864	0.97
7_L	30_W	0.861	0.97
100_V	164_E	0.859	0.97
66_K	70_S	0.857	0.97
31_A	36_L	0.856	0.97
16_L	169_F	0.856	0.97
309_Q	323_S	0.855	0.97
117_S	132_I	0.853	0.97
305_E	309_Q	0.852	0.97
7_L	91_A	0.848	0.97
108_I	289_A	0.843	0.96
5_T	28_C	0.842	0.96
322_E	326_A	0.841	0.96
77_V	84_I	0.839	0.96
194_I	290_A	0.823	0.96
206_G	266_K	0.822	0.96
47_K	52_N	0.822	0.96
6_M	59_I	0.819	0.96
306_A	309_Q	0.818	0.96
209_D	212_K	0.814	0.96
327_R	330_T	0.812	0.96
11_S	49_Y	0.809	0.95
29_V	61_G	0.809	0.95
300_K	305_E	0.807	0.95
131_D	161_A	0.807	0.95
77_V	105_S	0.806	0.95
69_V	72_A	0.806	0.95
110_P	289_A	0.803	0.95
154_A	169_F	0.802	0.95
248_V	254_H	0.802	0.95
81_T	105_S	0.800	0.95
177_Y	218_R	0.799	0.95
253_V	259_R	0.798	0.95
71_D	96_T	0.792	0.95
39_Q	48_D	0.791	0.95
95_I	99_A	0.779	0.94
6_M	17_A	0.777	0.94
109_E	114_L	0.773	0.94
48_D	278_G	0.772	0.94
207_Y	321_V	0.772	0.94
117_S	186_E	0.771	0.94
28_C	72_A	0.771	0.94
38_H	41_N	0.770	0.94
248_V	252_S	0.768	0.94
19_V	171_N	0.767	0.94
191_L	223_I	0.763	0.94
118_E	121_E	0.763	0.94
271_E	314_G	0.761	0.94
102_V	133_V	0.758	0.94
260_A	277_M	0.758	0.94
140_H	209_D	0.749	0.93
18_L	55_L	0.748	0.93
100_V	165_V	0.748	0.93
229_K	299_V	0.746	0.93
216_I	250_C	0.746	0.93
268_Y	273_V	0.745	0.93
133_V	154_A	0.737	0.93
163_E	167_D	0.735	0.93
103_H	132_I	0.734	0.93
263_L	277_M	0.726	0.92
74_V	164_E	0.725	0.92
270_L	273_V	0.722	0.92
155_S	182_I	0.721	0.92
243_V	247_I	0.720	0.92
291_Y	313_N	0.720	0.92
5_T	75_I	0.719	0.92
140_H	252_S	0.719	0.92
18_L	53_V	0.718	0.92
18_L	145_G	0.715	0.92
4_V	25_N	0.715	0.92
226_L	294_S	0.714	0.91
272_D	275_E	0.712	0.91
29_V	44_H	0.712	0.91
33_R	37_I	0.711	0.91
108_I	187_I	0.708	0.91
166_Q	178_T	0.707	0.91
292_Q	296_K	0.706	0.91
7_L	77_V	0.705	0.91
300_K	330_T	0.699	0.91
224_A	234_P	0.697	0.90
199_A	258_W	0.696	0.90
264_L	270_L	0.694	0.90
270_L	274_L	0.694	0.90
281_V	284_V	0.686	0.90
273_V	281_V	0.685	0.90
319_T	323_S	0.685	0.90
21_T	56_S	0.680	0.89
89_R	92_V	0.680	0.89
230_M	293_L	0.675	0.89
7_L	87_V	0.673	0.89
102_V	135_L	0.673	0.89
309_Q	320_A	0.673	0.89
151_T	214_A	0.672	0.89
259_R	262_N	0.670	0.89
142_E	248_V	0.667	0.88
80_P	83_A	0.667	0.88
18_L	59_I	0.667	0.88
293_L	296_K	0.665	0.88
266_K	276_E	0.664	0.88
56_S	59_I	0.664	0.88
290_A	304_T	0.659	0.88
139_S	248_V	0.658	0.88
121_E	182_I	0.657	0.88
223_I	246_L	0.653	0.87
318_E	322_E	0.651	0.87
293_L	297_Y	0.650	0.87
18_L	173_N	0.650	0.87
224_A	235_L	0.649	0.87
45_E	51_P	0.643	0.87
91_A	94_F	0.640	0.86
15_A	50_L	0.640	0.86
224_A	237_F	0.639	0.86
161_A	164_E	0.638	0.86
177_Y	327_R	0.638	0.86
199_A	212_K	0.637	0.86
92_V	126_S	0.637	0.86
159_M	331_H	0.636	0.86
20_L	23_N	0.635	0.86
159_M	162_A	0.633	0.86
69_V	99_A	0.632	0.86
188_G	243_V	0.632	0.86
44_H	55_L	0.631	0.86
147_R	171_N	0.630	0.86
88_L	123_E	0.629	0.85
33_R	83_A	0.628	0.85
211_A	214_A	0.626	0.85
191_L	301_M	0.626	0.85
228_T	235_L	0.626	0.85
142_E	209_D	0.625	0.85
108_I	190_A	0.623	0.85
68_A	72_A	0.622	0.85
259_R	277_M	0.621	0.85
65_M	87_V	0.619	0.85
85_R	112_S	0.619	0.85
166_Q	329_K	0.618	0.84
252_S	258_W	0.618	0.84
9_A	36_L	0.617	0.84
95_I	101_F	0.617	0.84
212_K	251_T	0.616	0.84
114_L	123_E	0.614	0.84
7_L	75_I	0.611	0.84
84_I	120_M	0.610	0.84
135_L	174_F	0.607	0.83
88_L	92_V	0.607	0.83
73_D	96_T	0.605	0.83
14_T	29_V	0.603	0.83
5_T	71_D	0.602	0.83
115_R	186_E	0.602	0.83
49_Y	80_P	0.598	0.82
260_A	274_L	0.597	0.82
135_L	154_A	0.597	0.82
179_N	185_V	0.597	0.82
32_H	36_L	0.596	0.82
83_A	86_E	0.595	0.82
82_K	105_S	0.595	0.82
193_N	249_T	0.594	0.82
110_P	285_R	0.593	0.82
110_P	288_K	0.592	0.82
14_T	49_Y	0.591	0.82
273_V	276_E	0.590	0.82
4_V	74_V	0.590	0.82
162_A	166_Q	0.588	0.81
155_S	179_N	0.588	0.81
65_M	90_Q	0.585	0.81
67_E	70_S	0.584	0.81
79_V	83_A	0.583	0.81
26_E	58_S	0.582	0.81
20_L	76_I	0.581	0.81
83_A	87_V	0.580	0.80
19_V	22_D	0.579	0.80
11_S	142_E	0.577	0.80
270_L	281_V	0.575	0.80
190_A	286_T	0.575	0.80
163_E	331_H	0.574	0.80
181_D	236_T	0.574	0.80
274_L	284_V	0.573	0.80
248_V	253_V	0.573	0.80
247_I	260_A	0.571	0.79
130_K	158_S	0.570	0.79
22_D	171_N	0.568	0.79
135_L	176_V	0.568	0.79
126_S	130_K	0.566	0.79
92_V	123_E	0.566	0.79
284_V	311_L	0.565	0.79
188_G	237_F	0.564	0.79
199_A	247_I	0.562	0.78
315_Q	319_T	0.561	0.78
153_T	241_T	0.561	0.78
117_S	182_I	0.560	0.78
8_G	79_V	0.560	0.78
253_V	258_W	0.559	0.78
181_D	184_G	0.559	0.78
216_I	251_T	0.558	0.78
185_V	241_T	0.558	0.78
82_K	286_T	0.557	0.78
328_G	331_H	0.556	0.78
264_L	273_V	0.555	0.78
7_L	65_M	0.555	0.78
88_L	124_L	0.553	0.77
72_A	75_I	0.552	0.77
44_H	54_K	0.552	0.77
81_T	289_A	0.551	0.77
15_A	140_H	0.549	0.77
294_S	299_V	0.549	0.77
178_T	331_H	0.549	0.77
88_L	132_I	0.549	0.77
112_S	122_I	0.547	0.77
139_S	144_V	0.546	0.76
265_G	273_V	0.544	0.76
260_A	263_L	0.543	0.76
125_P	130_K	0.541	0.76
103_H	115_R	0.541	0.76
226_L	297_Y	0.541	0.76
11_S	79_V	0.540	0.76
100_V	133_V	0.540	0.76
218_R	240_L	0.540	0.76
121_E	132_I	0.539	0.75
44_H	60_K	0.536	0.75
136_S	189_G	0.535	0.75
118_E	183_I	0.535	0.75
140_H	253_V	0.534	0.75
193_N	245_D	0.534	0.75
44_H	58_S	0.532	0.75
293_L	299_V	0.531	0.74
32_H	49_Y	0.531	0.74
120_M	124_L	0.529	0.74
144_V	152_V	0.529	0.74
159_M	178_T	0.527	0.74
17_A	29_V	0.526	0.74
7_L	69_V	0.525	0.74
84_I	88_L	0.522	0.73
15_A	145_G	0.522	0.73
205_L	215_L	0.522	0.73
222_E	302_P	0.521	0.73
172_H	322_E	0.520	0.73
95_I	124_L	0.520	0.73
201_I	262_N	0.520	0.73
166_Q	176_V	0.519	0.73
259_R	279_M	0.518	0.73
177_Y	225_R	0.517	0.72
232_G	237_F	0.517	0.72
88_L	91_A	0.516	0.72
284_V	312_F	0.515	0.72
180_P	331_H	0.514	0.72
119_I	123_E	0.514	0.72
213_A	248_V	0.514	0.72
207_Y	211_A	0.514	0.72
140_H	152_V	0.513	0.72
286_T	290_A	0.510	0.71
273_V	278_G	0.509	0.71
102_V	169_F	0.509	0.71
109_E	122_I	0.509	0.71
156_S	161_A	0.508	0.71
175_R	327_R	0.508	0.71
179_N	287_T	0.508	0.71
244_G	282_E	0.507	0.71
70_S	96_T	0.507	0.71
69_V	96_T	0.506	0.71
327_R	332_E	0.505	0.71
131_D	156_S	0.505	0.71
110_P	292_Q	0.504	0.71
103_H	117_S	0.504	0.71
138_P	244_G	0.504	0.71
202_T	215_L	0.503	0.70
11_S	14_T	0.500	0.70

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
1yj8A	2	0.9362	100	0.52	Contact Map
3k96A	2	0.9391	100	0.525	Contact Map
1evyA	2	0.9652	100	0.528	Contact Map
1x0vA	2	0.942	100	0.55	Contact Map
1txgA	2	0.9275	100	0.556	Contact Map
1z82A	2	0.9072	100	0.56	Contact Map
4fgwA	2	0.9275	100	0.572	Contact Map
1np3A	4	0.8261	100	0.642	Contact Map
2p4qA	2	0.8841	100	0.646	Contact Map
4tskA	3	0.8406	100	0.663	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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