PUUB - ECOLI - GREMLIN Contacts

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PUUB - Gamma-glutamylputrescine oxidoreductase

UniProt:	P37906	Sequences: MTEHTSSYYAASANKYAPFDTLNESITCDVCVVGGGYTGLSSALHLAEAGFDVVVLEASRIGFGASGRNGGQLVNSYSRDIDVIEKSYGMDTARMLGSMMFEGGEIIRERIKRYQIDCDYRPGGLFVAMNDKQLATLEEQKENWERYGNKQLELLDANAIRREVASDRYTGALLDHSGGHIHPLNLAIGEADAIRLNGGRVYELSAVTQIQHTTPAVVRTAKGQVTAKYVIVAGNAYLGDKVEPELAKRSMPCGTQVITTERLSEDLARSLIPKNYCVEDCNYLLDYYRLTADNRLLYGGGVVYGARDPDDVERLVVPKLLKTFPQLKGVKIDYRWTGNFLLTLSRMPQFGRLDTNIYYMQGYSGHGVTCTHLAGRLIAELLRGDAERFDAFANLPHYPFPGGRTLRVPFTAMGAAYYSLRDRLGV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11822
Length:	426 (348)
Sequences:	24845 (17695)
Seq/√Len:	948.6

ECOLI - PUUB LHGO MTOX DADA GLPA MNMC GLPD MQO
BACSU - YHFW YURR GLOX GLPD
HALSA - Q9HSD9 Q9HNS4
SULSO - Q980U0 Q97VT4 Q97ZD5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
194_I	199_G	4.737	1.00
28_C	54_V	3.887	1.00
58_A	206_A	3.292	1.00
29_D	228_K	2.930	1.00
31_C	218_V	2.882	1.00
31_C	227_A	2.859	1.00
209_Q	219_R	2.760	1.00
29_D	52_D	2.758	1.00
206_A	221_A	2.719	1.00
160_I	172_A	2.697	1.00
54_V	202_Y	2.686	1.00
108_R	122_P	2.548	1.00
211_Q	219_R	2.495	1.00
48_E	113_R	2.464	1.00
261_E	331_K	2.462	1.00
217_V	224_Q	2.459	1.00
156_D	159_A	2.432	1.00
211_Q	217_V	2.401	1.00
30_V	46_L	2.374	1.00
219_R	224_Q	2.287	1.00
47_A	197_N	2.259	1.00
31_C	56_L	2.248	1.00
51_F	383_R	2.228	1.00
52_D	200_R	2.214	1.00
102_E	376_R	2.197	1.00
56_L	225_V	2.168	1.00
134_L	171_G	2.083	1.00
47_A	199_G	2.033	1.00
229_Y	358_Y	2.016	1.00
159_A	162_R	2.014	1.00
27_T	226_T	2.012	1.00
42_S	231_I	1.991	1.00
151_Q	177_S	1.969	1.00
153_E	159_A	1.956	1.00
27_T	228_K	1.931	1.00
45_H	376_R	1.925	1.00
44_L	193_A	1.903	1.00
255_T	340_F	1.902	1.00
40_L	187_A	1.897	1.00
30_V	51_F	1.875	1.00
40_L	191_A	1.847	1.00
109_E	113_R	1.828	1.00
61_I	203_E	1.825	1.00
138_E	154_L	1.811	1.00
106_I	376_R	1.803	1.00
48_E	197_N	1.782	1.00
380_E	385_D	1.761	1.00
314_R	318_P	1.746	1.00
360_M	374_A	1.728	1.00
360_M	378_I	1.726	1.00
31_C	225_V	1.725	1.00
157_A	161_R	1.704	1.00
217_V	226_T	1.684	1.00
45_H	375_G	1.684	1.00
44_L	48_E	1.682	1.00
142_E	146_R	1.678	1.00
193_A	196_L	1.671	1.00
363_Y	374_A	1.660	1.00
28_C	200_R	1.652	1.00
141_K	145_E	1.643	1.00
49_A	383_R	1.638	1.00
238_L	361_Q	1.632	1.00
153_E	176_H	1.627	1.00
358_Y	378_I	1.606	1.00
107_I	186_L	1.593	1.00
231_I	382_L	1.591	1.00
358_Y	382_L	1.584	1.00
138_E	142_E	1.583	1.00
35_G	61_I	1.580	1.00
153_E	174_L	1.567	1.00
193_A	197_N	1.550	1.00
142_E	145_E	1.536	1.00
47_A	194_I	1.535	1.00
208_T	219_R	1.534	1.00
232_V	238_L	1.529	1.00
207_V	218_V	1.528	1.00
261_E	333_D	1.517	1.00
49_A	385_D	1.504	1.00
28_C	31_C	1.502	1.00
220_T	223_G	1.489	1.00
38_T	360_M	1.487	1.00
213_T	217_V	1.474	1.00
229_Y	382_L	1.465	1.00
61_I	191_A	1.462	1.00
134_L	138_E	1.460	1.00
277_C	280_D	1.457	1.00
202_Y	205_S	1.450	1.00
317_V	321_L	1.443	1.00
208_T	221_A	1.438	1.00
191_A	201_V	1.428	1.00
106_I	109_E	1.428	1.00
232_V	357_I	1.426	1.00
182_H	185_N	1.424	1.00
135_A	138_E	1.418	1.00
192_D	196_L	1.408	1.00
35_G	55_V	1.407	1.00
60_R	203_E	1.407	1.00
192_D	195_R	1.402	1.00
38_T	363_Y	1.397	1.00
310_D	314_R	1.391	1.00
59_S	63_F	1.388	1.00
131_D	170_T	1.376	1.00
380_E	388_R	1.370	1.00
102_E	105_E	1.365	1.00
37_Y	371_T	1.362	1.00
30_V	229_Y	1.341	1.00
59_S	64_G	1.336	1.00
45_H	48_E	1.332	1.00
119_D	185_N	1.328	1.00
31_C	54_V	1.328	1.00
220_T	225_V	1.325	1.00
42_S	360_M	1.324	1.00
155_L	159_A	1.321	1.00
205_S	220_T	1.319	1.00
46_L	379_A	1.318	1.00
217_V	220_T	1.311	1.00
211_Q	224_Q	1.301	1.00
54_V	225_V	1.289	1.00
45_H	49_A	1.273	1.00
191_A	195_R	1.258	1.00
260_T	263_L	1.257	1.00
353_L	359_Y	1.249	1.00
232_V	359_Y	1.243	1.00
41_S	45_H	1.242	1.00
49_A	379_A	1.238	1.00
33_V	234_G	1.236	1.00
43_A	53_V	1.234	1.00
40_L	55_V	1.226	1.00
40_L	194_I	1.222	1.00
163_E	174_L	1.219	1.00
105_E	109_E	1.213	1.00
158_N	162_R	1.208	1.00
56_L	227_A	1.194	1.00
131_D	135_A	1.193	1.00
139_E	142_E	1.190	1.00
227_A	230_V	1.189	1.00
234_G	242_V	1.188	1.00
32_V	43_A	1.186	1.00
376_R	380_E	1.179	1.00
62_G	187_A	1.178	1.00
29_D	51_F	1.172	1.00
358_Y	381_L	1.160	1.00
159_A	163_E	1.155	1.00
210_I	230_V	1.152	1.00
213_T	226_T	1.146	1.00
375_G	379_A	1.135	1.00
234_G	238_L	1.134	1.00
155_L	163_E	1.132	1.00
41_S	190_E	1.124	1.00
29_D	54_V	1.122	1.00
114_Y	193_A	1.119	1.00
377_L	380_E	1.115	1.00
313_E	335_R	1.113	1.00
109_E	112_K	1.112	1.00
360_M	363_Y	1.105	1.00
56_L	207_V	1.104	1.00
56_L	202_Y	1.101	1.00
33_V	230_V	1.098	1.00
352_R	355_T	1.095	1.00
28_C	52_D	1.083	1.00
212_H	216_A	1.072	1.00
134_L	170_T	1.070	1.00
184_L	188_I	1.060	1.00
130_N	133_Q	1.055	1.00
61_I	201_V	1.051	1.00
35_G	57_E	1.051	1.00
55_V	201_V	1.050	1.00
120_Y	179_G	1.048	1.00
42_S	375_G	1.047	1.00
141_K	154_L	1.045	1.00
348_P	351_G	1.044	1.00
215_P	226_T	1.043	1.00
151_Q	176_H	1.041	1.00
319_K	322_K	1.040	1.00
124_G	174_L	1.039	1.00
153_E	163_E	1.038	1.00
42_S	233_A	1.031	1.00
350_F	374_A	1.023	1.00
44_L	197_N	1.022	1.00
181_I	186_L	1.021	1.00
348_P	352_R	1.021	1.00
216_A	230_V	1.019	1.00
43_A	55_V	1.015	1.00
229_Y	352_R	1.009	1.00
141_K	173_L	1.008	1.00
135_A	139_E	1.005	1.00
128_A	137_L	1.001	1.00
111_I	118_C	1.001	1.00
41_S	371_T	1.000	1.00
108_R	112_K	0.986	1.00
41_S	375_G	0.986	1.00
49_A	380_E	0.981	1.00
104_G	108_R	0.980	1.00
134_L	154_L	0.980	1.00
46_L	51_F	0.972	1.00
102_E	106_I	0.968	1.00
205_S	222_K	0.967	1.00
107_I	371_T	0.966	1.00
240_D	244_P	0.963	1.00
313_E	317_V	0.960	1.00
117_D	185_N	0.953	1.00
54_V	200_R	0.949	1.00
166_S	169_Y	0.949	1.00
276_Y	279_E	0.949	1.00
102_E	373_L	0.945	1.00
32_V	42_S	0.944	1.00
68_R	336_W	0.943	1.00
318_P	321_L	0.942	1.00
189_G	193_A	0.940	1.00
309_P	312_V	0.934	1.00
103_G	107_I	0.932	1.00
229_Y	356_N	0.928	1.00
181_I	368_V	0.923	1.00
232_V	243_E	0.919	1.00
295_R	333_D	0.917	1.00
43_A	199_G	0.915	1.00
56_L	220_T	0.915	1.00
298_Y	320_L	0.911	1.00
40_L	201_V	0.909	1.00
264_S	267_L	0.905	1.00
286_D	289_R	0.905	1.00
379_A	382_L	0.905	1.00
210_I	216_A	0.903	1.00
202_Y	225_V	0.902	1.00
154_L	171_G	0.896	1.00
53_V	199_G	0.896	1.00
212_H	356_N	0.892	1.00
45_H	106_I	0.884	1.00
161_R	166_S	0.882	1.00
318_P	322_K	0.879	1.00
321_L	328_K	0.878	1.00
186_L	368_V	0.876	1.00
186_L	372_H	0.876	1.00
286_D	290_L	0.871	1.00
215_P	228_K	0.864	1.00
348_P	353_L	0.856	1.00
260_T	298_Y	0.855	1.00
116_I	189_G	0.850	1.00
230_V	356_N	0.850	1.00
189_G	192_D	0.848	1.00
205_S	225_V	0.845	1.00
145_E	152_L	0.845	1.00
98_S	102_E	0.843	1.00
110_R	114_Y	0.841	1.00
233_A	360_M	0.841	1.00
33_V	207_V	0.839	1.00
212_H	215_P	0.838	1.00
60_R	204_L	0.834	1.00
43_A	194_I	0.833	1.00
259_T	297_L	0.831	1.00
258_I	332_I	0.830	1.00
60_R	63_F	0.829	1.00
352_R	358_Y	0.825	1.00
256_Q	303_V	0.819	1.00
352_R	381_L	0.817	1.00
210_I	218_V	0.817	1.00
103_G	373_L	0.816	1.00
207_V	210_I	0.815	1.00
185_N	188_I	0.814	1.00
276_Y	280_D	0.811	1.00
37_Y	66_S	0.811	1.00
30_V	231_I	0.805	1.00
229_Y	232_V	0.804	1.00
27_T	52_D	0.803	1.00
74_V	366_H	0.798	1.00
137_L	141_K	0.798	1.00
57_E	60_R	0.794	1.00
261_E	295_R	0.791	1.00
107_I	372_H	0.790	1.00
259_T	334_Y	0.788	1.00
348_P	354_D	0.788	1.00
128_A	134_L	0.788	1.00
138_E	141_K	0.787	1.00
154_L	173_L	0.786	1.00
51_F	229_Y	0.782	1.00
194_I	201_V	0.782	1.00
160_I	169_Y	0.781	1.00
42_S	382_L	0.778	1.00
99_M	377_L	0.778	1.00
125_L	128_A	0.775	1.00
157_A	160_I	0.774	1.00
101_F	105_E	0.772	1.00
212_H	355_T	0.771	1.00
315_L	319_K	0.771	1.00
131_D	134_L	0.769	1.00
315_L	318_P	0.769	1.00
28_C	228_K	0.768	1.00
243_E	359_Y	0.767	1.00
37_Y	187_A	0.766	1.00
55_V	199_G	0.764	1.00
65_A	236_A	0.763	1.00
253_C	342_L	0.762	1.00
68_R	338_G	0.760	1.00
158_N	161_R	0.759	1.00
44_L	190_E	0.757	1.00
106_I	373_L	0.756	1.00
71_G	183_P	0.753	1.00
352_R	356_N	0.751	1.00
250_S	341_L	0.750	1.00
206_A	240_D	0.744	1.00
350_F	353_L	0.742	1.00
350_F	378_I	0.736	1.00
186_L	190_E	0.735	1.00
343_T	362_G	0.735	1.00
380_E	387_E	0.734	1.00
74_V	369_T	0.734	1.00
136_T	139_E	0.734	1.00
155_L	160_I	0.732	1.00
46_L	382_L	0.732	1.00
350_F	354_D	0.729	1.00
254_G	337_T	0.729	1.00
254_G	303_V	0.727	1.00
260_T	332_I	0.726	1.00
75_N	101_F	0.718	1.00
195_R	201_V	0.717	1.00
148_G	151_Q	0.714	1.00
194_I	198_G	0.714	1.00
216_A	357_I	0.713	1.00
33_V	232_V	0.712	1.00
205_S	221_A	0.709	1.00
41_S	372_H	0.708	1.00
143_N	146_R	0.708	1.00
216_A	356_N	0.704	1.00
321_L	329_G	0.704	1.00
251_M	304_Y	0.703	1.00
276_Y	281_C	0.703	1.00
366_H	369_T	0.702	1.00
259_T	295_R	0.700	1.00
387_E	390_D	0.700	1.00
42_S	378_I	0.692	1.00
228_K	356_N	0.691	1.00
99_M	373_L	0.691	1.00
351_G	354_D	0.689	1.00
215_P	355_T	0.686	1.00
52_D	228_K	0.684	1.00
105_E	108_R	0.684	1.00
187_A	191_A	0.680	1.00
231_I	378_I	0.679	1.00
49_A	376_R	0.679	1.00
373_L	376_R	0.678	1.00
122_P	177_S	0.676	1.00
58_A	64_G	0.672	1.00
303_V	312_V	0.670	1.00
208_T	220_T	0.669	1.00
258_I	316_V	0.668	1.00
125_L	160_I	0.668	1.00
37_Y	368_V	0.668	1.00
111_I	117_D	0.666	1.00
161_R	167_D	0.662	1.00
66_S	187_A	0.662	1.00
121_R	180_H	0.661	1.00
111_I	114_Y	0.660	1.00
31_C	230_V	0.659	1.00
58_A	237_Y	0.656	1.00
207_V	220_T	0.653	1.00
252_P	339_N	0.653	1.00
26_I	202_Y	0.651	1.00
155_L	174_L	0.648	1.00
349_Q	352_R	0.647	1.00
141_K	152_L	0.647	1.00
47_A	52_D	0.645	1.00
41_S	186_L	0.643	1.00
29_D	226_T	0.642	1.00
45_H	379_A	0.640	1.00
237_Y	240_D	0.640	1.00
287_Y	299_G	0.640	1.00
66_S	69_N	0.639	1.00
190_E	371_T	0.639	1.00
277_C	281_C	0.639	1.00
379_A	383_R	0.635	1.00
191_A	203_E	0.634	1.00
317_V	335_R	0.632	1.00
163_E	276_Y	0.631	1.00
70_G	287_Y	0.630	1.00
106_I	372_H	0.629	1.00
139_E	143_N	0.629	1.00
314_R	317_V	0.627	1.00
387_E	391_A	0.626	1.00
210_I	232_V	0.625	1.00
100_M	370_C	0.623	1.00
160_I	163_E	0.623	1.00
48_E	193_A	0.622	1.00
55_V	191_A	0.621	1.00
195_R	200_R	0.621	1.00
38_T	374_A	0.620	1.00
256_Q	309_P	0.616	1.00
185_N	189_G	0.616	1.00
134_L	137_L	0.615	1.00
256_Q	337_T	0.615	1.00
343_T	349_Q	0.614	1.00
103_G	106_I	0.611	1.00
97_G	101_F	0.610	1.00
175_D	178_G	0.608	1.00
285_L	288_Y	0.608	1.00
99_M	103_G	0.608	1.00
217_V	230_V	0.607	1.00
144_W	147_Y	0.606	1.00
156_D	160_I	0.605	1.00
188_I	192_D	0.603	1.00
49_A	384_G	0.601	1.00
244_P	247_A	0.601	1.00
111_I	116_I	0.599	1.00
301_G	304_Y	0.597	1.00
319_K	323_T	0.594	1.00
57_E	203_E	0.594	1.00
124_G	176_H	0.593	1.00
257_V	336_W	0.590	1.00
144_W	152_L	0.589	1.00
32_V	53_V	0.589	1.00
114_Y	189_G	0.589	1.00
215_P	356_N	0.588	1.00
371_T	375_G	0.587	1.00
168_R	322_K	0.587	1.00
210_I	357_I	0.586	1.00
207_V	242_V	0.586	1.00
72_Q	287_Y	0.580	1.00
26_I	54_V	0.580	1.00
297_L	300_G	0.579	1.00
73_L	107_I	0.577	1.00
156_D	162_R	0.576	1.00
253_C	302_V	0.576	1.00
44_L	110_R	0.574	1.00
143_N	147_Y	0.574	1.00
205_S	223_G	0.574	1.00
321_L	327_L	0.574	1.00
343_T	346_R	0.573	1.00
98_S	101_F	0.573	1.00
101_F	104_G	0.572	1.00
275_N	280_D	0.572	1.00
77_Y	369_T	0.570	1.00
302_V	365_G	0.570	1.00
44_L	194_I	0.570	1.00
26_I	52_D	0.568	1.00
73_L	181_I	0.567	1.00
125_L	155_L	0.564	1.00
232_V	242_V	0.562	1.00
105_E	177_S	0.561	1.00
47_A	53_V	0.559	1.00
341_L	363_Y	0.558	1.00
108_R	120_Y	0.557	1.00
309_P	313_E	0.557	1.00
138_E	171_G	0.557	1.00
96_L	100_M	0.555	1.00
275_N	279_E	0.554	1.00
363_Y	371_T	0.554	1.00
29_D	227_A	0.552	1.00
275_N	278_V	0.551	1.00
360_M	375_G	0.550	1.00
56_L	205_S	0.550	1.00
332_I	335_R	0.548	1.00
26_I	200_R	0.548	1.00
343_T	364_S	0.547	1.00
285_L	289_R	0.545	1.00
236_A	339_N	0.545	1.00
242_V	245_E	0.545	1.00
140_Q	144_W	0.544	1.00
310_D	313_E	0.543	1.00
69_N	368_V	0.540	1.00
231_I	358_Y	0.540	1.00
308_D	313_E	0.539	1.00
144_W	148_G	0.539	1.00
238_L	250_S	0.537	1.00
243_E	357_I	0.537	1.00
351_G	359_Y	0.536	1.00
311_D	314_R	0.535	1.00
62_G	184_L	0.533	1.00
287_Y	290_L	0.533	1.00
45_H	110_R	0.531	1.00
280_D	283_Y	0.531	1.00
106_I	110_R	0.531	1.00
380_E	384_G	0.530	1.00
100_M	369_T	0.528	1.00
308_D	335_R	0.528	1.00
208_T	211_Q	0.527	1.00
212_H	217_V	0.527	1.00
314_R	329_G	0.527	1.00
157_A	167_D	0.526	1.00
278_V	281_C	0.525	1.00
77_Y	126_F	0.525	1.00
75_N	175_D	0.525	1.00
353_L	357_I	0.524	1.00
64_G	68_R	0.521	1.00
194_I	197_N	0.521	1.00
72_Q	178_G	0.520	1.00
377_L	391_A	0.520	1.00
202_Y	223_G	0.519	1.00
325_P	328_K	0.519	1.00
77_Y	178_G	0.517	1.00
73_L	369_T	0.516	1.00
373_L	377_L	0.515	1.00
55_V	194_I	0.515	1.00
119_D	292_A	0.514	1.00
129_M	133_Q	0.514	1.00
209_Q	212_H	0.514	1.00
76_S	80_D	0.514	1.00
284_L	290_L	0.514	1.00
107_I	111_I	0.513	1.00
100_M	104_G	0.512	1.00
119_D	182_H	0.511	1.00
204_L	222_K	0.511	1.00
155_L	172_A	0.510	1.00
37_Y	186_L	0.510	1.00
44_L	113_R	0.509	1.00
254_G	339_N	0.509	1.00
388_R	391_A	0.508	1.00
316_V	319_K	0.507	1.00
101_F	177_S	0.507	1.00
296_L	299_G	0.507	1.00
372_H	375_G	0.507	1.00
160_I	164_V	0.505	1.00
258_I	313_E	0.504	1.00
217_V	356_N	0.503	1.00
44_L	47_A	0.503	1.00
276_Y	282_N	0.502	1.00
255_T	301_G	0.502	1.00
211_Q	226_T	0.502	1.00
218_V	230_V	0.502	1.00
301_G	340_F	0.502	1.00
54_V	227_A	0.500	1.00
220_T	224_Q	0.500	1.00
125_L	174_L	0.500	1.00
152_L	175_D	0.500	1.00

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
4h1bA	1	0.8427	100	0.364	Contact Map
1y56B	1	0.8404	100	0.401	Contact Map
3axbA	2	0.8545	100	0.405	Contact Map
2gagB	1	0.8944	100	0.407	Contact Map
4x9mA	1	0.8427	100	0.409	Contact Map
3pvcA	1	0.8944	100	0.409	Contact Map
2gf3A	1	0.8521	100	0.41	Contact Map
4rslA	1	0.8897	100	0.415	Contact Map
3ps9A	1	0.8897	100	0.418	Contact Map
1ryiA	4	0.8192	100	0.42	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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