YDJJ - ECOLI - GREMLIN Contacts

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YDJJ - Uncharacterized zinc-type alcohol dehydrogenase-like protein YdjJ

UniProt:	P77280	Sequences: MKNSKAILQVPGTMKIISAEIPVPKEDEVLIKVEYVGICGSDVHGFESGPFIPPKDPNQEIGLGHECAGTVVAVGSRVRKFKPGDRVNIEPGVPCGHCRYCLEGKYNICPDVDFMATQPNYRGALTHYLCHPESFTYKLPDNMDTMEGALVEPAAVGMHAAMLADVKPGKKIIILGAGCIGLMTLQACKCLGATEIAVVDVLEKRLAMAEQLGATVVINGAKEDTIARCQQFTEDMGADIVFETAGSAVTVKQAPYLVMRGGKIMIVGTVPGDSAINFLKINREVTIQTVFRYANRYPVTIEAISSGRFDVKSMVTHIYDYRDVQQAFEESVNNKRDIIKGVIKISD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13486
Length:	347 (302)
Sequences:	52893 (36488)
Seq/√Len:	2099.6

ECOLI - YDJJ FRMA YBDR RSPB YDJL GATD YPHC YGGP YJJN TDH ADHP YAHK IDND AHR YCJQ QOR1 ACUI CURA
BACSU - YJMD DHSO TDH ADHB BDHA YYCR ADHA YOGA YHFP YFMJ
HALSA - Q9HMB6 Q9HP38 GLCDH Q9HQS8 Q9HR85
SULSO - Q97YT7 Q97ZV3 Q97VV5 ADH Q97XR4 Q7LXK1 Q97WA1 Q97TZ4 Q97VW0 Q97YM2 Q97V32 GLCD2 GLCD1 GLCD3 Q97W06 Q97VB8 Q97UW5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
34_E	145_T	2.999	1.00
32_K	72_V	2.911	1.00
34_E	70_T	2.828	1.00
323_D	326_Q	2.695	1.00
9_Q	17_I	2.668	1.00
171_K	195_E	2.559	1.00
30_L	72_V	2.456	1.00
82_K	85_D	2.444	1.00
86_R	139_L	2.329	1.00
85_D	138_K	2.329	1.00
29_V	136_T	2.270	1.00
144_D	147_E	2.268	1.00
21_I	128_Y	2.237	1.00
146_M	318_I	2.225	1.00
9_Q	15_K	2.223	1.00
177_A	198_V	2.204	1.00
189_K	215_T	2.184	1.00
32_K	128_Y	2.149	1.00
319_Y	330_E	2.144	1.00
32_K	70_T	2.121	1.00
172_I	188_C	2.107	1.00
317_H	330_E	2.097	1.00
7_I	17_I	2.097	1.00
228_R	231_Q	2.084	1.00
67_C	124_A	2.083	1.00
318_I	344_K	2.072	1.00
167_K	170_K	2.031	1.00
67_C	89_I	2.017	1.00
206_L	210_E	1.998	1.00
162_M	191_L	1.990	1.00
25_K	28_E	1.987	1.00
26_E	76_S	1.986	1.00
26_E	77_R	1.961	1.00
80_K	133_E	1.938	1.00
142_N	305_S	1.935	1.00
30_L	130_C	1.925	1.00
195_E	216_V	1.892	1.00
72_V	128_Y	1.885	1.00
185_L	214_A	1.885	1.00
47_E	332_V	1.868	1.00
27_D	77_R	1.868	1.00
86_R	145_T	1.813	1.00
302_E	306_S	1.807	1.00
329_E	333_N	1.796	1.00
207_A	211_Q	1.781	1.00
154_A	183_M	1.771	1.00
320_D	323_D	1.771	1.00
68_A	145_T	1.731	1.00
190_C	308_R	1.715	1.00
263_K	286_T	1.714	1.00
207_A	210_E	1.701	1.00
162_M	299_V	1.678	1.00
239_D	259_M	1.677	1.00
330_E	335_K	1.676	1.00
173_I	199_V	1.675	1.00
206_L	217_V	1.666	1.00
173_I	238_A	1.652	1.00
208_M	211_Q	1.644	1.00
263_K	288_Q	1.643	1.00
139_L	145_T	1.637	1.00
326_Q	329_E	1.595	1.00
197_A	238_A	1.574	1.00
23_V	73_A	1.567	1.00
200_D	206_L	1.564	1.00
326_Q	330_E	1.559	1.00
216_V	232_F	1.542	1.00
30_L	128_Y	1.533	1.00
6_A	324_V	1.533	1.00
70_T	86_R	1.531	1.00
319_Y	327_A	1.530	1.00
139_L	148_G	1.516	1.00
4_S	18_S	1.503	1.00
195_E	215_T	1.497	1.00
203_E	219_N	1.488	1.00
258_V	264_I	1.484	1.00
203_E	207_A	1.483	1.00
73_A	83_P	1.458	1.00
175_L	254_A	1.451	1.00
74_V	83_P	1.449	1.00
30_L	73_A	1.449	1.00
81_F	85_D	1.439	1.00
241_V	258_V	1.430	1.00
203_E	222_K	1.429	1.00
125_L	328_F	1.414	1.00
164_A	240_I	1.412	1.00
147_E	312_K	1.411	1.00
146_M	344_K	1.408	1.00
325_Q	329_E	1.405	1.00
258_V	285_V	1.401	1.00
27_D	132_P	1.401	1.00
81_F	138_K	1.393	1.00
219_N	222_K	1.392	1.00
28_E	132_P	1.390	1.00
33_V	67_C	1.387	1.00
258_V	262_G	1.381	1.00
5_K	19_A	1.373	1.00
28_E	130_C	1.368	1.00
170_K	263_K	1.350	1.00
241_V	254_A	1.337	1.00
75_G	78_V	1.336	1.00
24_P	130_C	1.334	1.00
224_D	227_A	1.331	1.00
223_E	228_R	1.328	1.00
4_S	322_R	1.322	1.00
35_Y	146_M	1.303	1.00
203_E	206_L	1.298	1.00
86_R	141_D	1.294	1.00
190_C	303_A	1.293	1.00
158_M	162_M	1.293	1.00
70_T	145_T	1.283	1.00
29_V	81_F	1.276	1.00
24_P	30_L	1.274	1.00
302_E	305_S	1.274	1.00
6_A	16_I	1.272	1.00
316_T	330_E	1.272	1.00
201_V	220_G	1.269	1.00
71_V	81_F	1.267	1.00
171_K	197_A	1.239	1.00
34_E	86_R	1.229	1.00
46_F	328_F	1.228	1.00
227_A	231_Q	1.227	1.00
228_R	232_F	1.219	1.00
320_D	344_K	1.208	1.00
211_Q	313_S	1.204	1.00
175_L	199_V	1.202	1.00
184_T	242_F	1.201	1.00
33_V	129_L	1.187	1.00
151_V	304_I	1.167	1.00
4_S	127_H	1.166	1.00
21_I	30_L	1.157	1.00
185_L	198_V	1.146	1.00
81_F	136_T	1.124	1.00
171_K	239_D	1.123	1.00
206_L	219_N	1.122	1.00
10_V	13_T	1.118	1.00
27_D	133_E	1.109	1.00
303_A	308_R	1.108	1.00
226_I	256_Y	1.105	1.00
210_E	217_V	1.099	1.00
166_V	193_A	1.095	1.00
299_V	302_E	1.093	1.00
35_Y	344_K	1.089	1.00
224_D	228_R	1.077	1.00
7_I	19_A	1.065	1.00
170_K	239_D	1.062	1.00
256_Y	280_K	1.056	1.00
131_H	136_T	1.047	1.00
201_V	206_L	1.042	1.00
208_M	338_I	1.040	1.00
324_V	343_I	1.021	1.00
226_I	253_Q	1.019	1.00
157_G	184_T	1.018	1.00
159_H	296_R	1.018	1.00
31_I	87_V	1.017	1.00
35_Y	145_T	1.009	1.00
188_C	193_A	1.008	1.00
197_A	216_V	1.003	1.00
166_V	170_K	1.002	1.00
78_V	133_E	1.001	1.00
163_L	286_T	0.997	1.00
46_F	332_V	0.997	1.00
210_E	216_V	0.990	1.00
31_I	69_G	0.985	1.00
164_A	265_M	0.979	1.00
329_E	332_V	0.978	1.00
162_M	296_R	0.976	1.00
16_I	322_R	0.975	1.00
253_Q	256_Y	0.974	1.00
72_V	83_P	0.973	1.00
245_A	250_T	0.972	1.00
36_V	125_L	0.965	1.00
24_P	28_E	0.963	1.00
226_I	230_Q	0.962	1.00
38_I	327_A	0.960	1.00
298_P	302_E	0.956	1.00
6_A	321_Y	0.954	1.00
319_Y	323_D	0.952	1.00
158_M	299_V	0.951	1.00
160_A	267_V	0.940	1.00
299_V	303_A	0.937	1.00
198_V	209_A	0.935	1.00
177_A	200_D	0.934	1.00
330_E	341_G	0.923	1.00
163_L	288_Q	0.922	1.00
157_G	187_A	0.916	1.00
170_K	240_I	0.914	1.00
9_Q	13_T	0.911	1.00
154_A	300_T	0.911	1.00
201_V	221_A	0.910	1.00
160_A	242_F	0.909	1.00
35_Y	342_V	0.909	1.00
202_L	205_R	0.907	1.00
177_A	185_L	0.903	1.00
79_R	133_E	0.903	1.00
177_A	209_A	0.896	1.00
11_P	59_Q	0.893	1.00
36_V	124_A	0.893	1.00
43_V	331_S	0.892	1.00
4_S	16_I	0.892	1.00
61_I	122_R	0.890	1.00
252_K	256_Y	0.889	1.00
222_K	228_R	0.888	1.00
198_V	214_A	0.885	1.00
182_L	208_M	0.878	1.00
205_R	338_I	0.875	1.00
34_E	68_A	0.873	1.00
88_N	301_I	0.871	1.00
74_V	82_K	0.863	1.00
39_C	66_E	0.855	1.00
19_A	122_R	0.855	1.00
229_C	238_A	0.851	1.00
185_L	196_I	0.848	1.00
125_L	324_V	0.847	1.00
204_K	207_A	0.845	1.00
143_M	148_G	0.842	1.00
199_V	220_G	0.836	1.00
197_A	218_I	0.836	1.00
6_A	14_M	0.835	1.00
261_G	284_E	0.834	1.00
175_L	241_V	0.834	1.00
243_E	246_G	0.833	1.00
173_I	257_L	0.830	1.00
21_I	73_A	0.828	1.00
7_I	62_G	0.825	1.00
74_V	78_V	0.823	1.00
5_K	62_G	0.821	1.00
233_T	237_G	0.821	1.00
174_I	188_C	0.814	1.00
32_K	127_H	0.813	1.00
137_Y	298_P	0.808	1.00
280_K	283_R	0.807	1.00
67_C	129_L	0.800	1.00
225_T	253_Q	0.797	1.00
21_I	72_V	0.790	1.00
295_N	299_V	0.789	1.00
155_A	296_R	0.788	1.00
209_A	214_A	0.787	1.00
165_D	263_K	0.787	1.00
188_C	196_I	0.782	1.00
241_V	264_I	0.782	1.00
29_V	133_E	0.778	1.00
39_C	65_H	0.778	1.00
37_G	66_E	0.776	1.00
191_L	299_V	0.772	1.00
89_I	131_H	0.768	1.00
200_D	217_V	0.768	1.00
141_D	305_S	0.765	1.00
174_I	184_T	0.765	1.00
244_T	267_V	0.760	1.00
187_A	300_T	0.760	1.00
124_A	129_L	0.760	1.00
172_I	193_A	0.758	1.00
47_E	50_P	0.756	1.00
254_A	264_I	0.755	1.00
317_H	326_Q	0.755	1.00
303_A	306_S	0.754	1.00
82_K	138_K	0.754	1.00
252_K	280_K	0.751	1.00
197_A	232_F	0.750	1.00
38_I	331_S	0.749	1.00
175_L	250_T	0.749	1.00
19_A	62_G	0.748	1.00
25_K	130_C	0.744	1.00
319_Y	341_G	0.744	1.00
125_L	343_I	0.741	1.00
227_A	230_Q	0.741	1.00
281_I	287_I	0.741	1.00
39_C	42_D	0.739	1.00
171_K	238_A	0.738	1.00
16_I	321_Y	0.733	1.00
196_I	215_T	0.732	1.00
201_V	209_A	0.732	1.00
197_A	229_C	0.732	1.00
171_K	236_M	0.731	1.00
295_N	298_P	0.730	1.00
23_V	30_L	0.728	1.00
330_E	333_N	0.725	1.00
161_A	188_C	0.723	1.00
226_I	257_L	0.718	1.00
6_A	325_Q	0.717	1.00
87_V	136_T	0.713	1.00
301_I	305_S	0.710	1.00
315_V	318_I	0.710	1.00
68_A	149_A	0.707	1.00
165_D	286_T	0.703	1.00
157_G	183_M	0.703	1.00
187_A	303_A	0.699	1.00
88_N	139_L	0.698	1.00
143_M	304_I	0.695	1.00
43_V	332_V	0.693	1.00
41_S	65_H	0.692	1.00
266_I	287_I	0.691	1.00
160_A	184_T	0.686	1.00
27_D	76_S	0.683	1.00
281_I	285_V	0.682	1.00
193_A	240_I	0.681	1.00
166_V	240_I	0.680	1.00
337_D	341_G	0.679	1.00
27_D	75_G	0.678	1.00
159_H	284_E	0.677	1.00
24_P	73_A	0.675	1.00
233_T	236_M	0.671	1.00
331_S	341_G	0.669	1.00
158_M	303_A	0.669	1.00
58_N	61_I	0.667	1.00
225_T	229_C	0.665	1.00
140_P	305_S	0.662	1.00
224_D	253_Q	0.658	1.00
29_V	71_V	0.657	1.00
319_Y	343_I	0.652	1.00
24_P	75_G	0.651	1.00
33_V	36_V	0.651	1.00
22_P	130_C	0.650	1.00
216_V	228_R	0.650	1.00
208_M	212_L	0.650	1.00
174_I	198_V	0.649	1.00
165_D	288_Q	0.647	1.00
202_L	219_N	0.646	1.00
243_E	264_I	0.644	1.00
162_M	187_A	0.643	1.00
185_L	212_L	0.643	1.00
240_I	265_M	0.637	1.00
57_P	61_I	0.636	1.00
85_D	141_D	0.634	1.00
273_D	277_N	0.634	1.00
303_A	307_G	0.634	1.00
137_Y	297_Y	0.633	1.00
186_Q	212_L	0.633	1.00
252_K	273_D	0.632	1.00
88_N	152_E	0.630	1.00
238_A	241_V	0.629	1.00
27_D	134_S	0.629	1.00
247_S	250_T	0.628	1.00
251_V	264_I	0.628	1.00
240_I	263_K	0.627	1.00
277_N	280_K	0.626	1.00
193_A	196_I	0.625	1.00
214_A	217_V	0.624	1.00
137_Y	301_I	0.622	1.00
158_M	296_R	0.622	1.00
68_A	139_L	0.621	1.00
157_G	180_I	0.621	1.00
189_K	196_I	0.619	1.00
157_G	161_A	0.618	1.00
234_E	237_G	0.618	1.00
330_E	337_D	0.617	1.00
41_S	45_G	0.617	1.00
12_G	46_F	0.616	1.00
317_H	341_G	0.615	1.00
156_V	180_I	0.613	1.00
35_Y	68_A	0.610	1.00
90_E	137_Y	0.607	1.00
68_A	86_R	0.606	1.00
13_T	325_Q	0.600	1.00
218_I	232_F	0.600	1.00
296_R	299_V	0.599	1.00
248_A	252_K	0.599	1.00
151_V	300_T	0.598	1.00
35_Y	318_I	0.597	1.00
65_H	153_P	0.597	1.00
158_M	300_T	0.596	1.00
34_E	344_K	0.594	1.00
184_T	267_V	0.591	1.00
281_I	289_T	0.591	1.00
168_P	192_G	0.588	1.00
89_I	136_T	0.586	1.00
43_V	47_E	0.584	1.00
297_Y	301_I	0.583	1.00
317_H	338_I	0.582	1.00
31_I	89_I	0.582	1.00
260_R	283_R	0.582	1.00
8_L	13_T	0.580	1.00
218_I	228_R	0.579	1.00
252_K	275_A	0.578	1.00
273_D	276_I	0.577	1.00
86_R	142_N	0.577	1.00
81_F	133_E	0.575	1.00
160_A	265_M	0.572	1.00
38_I	125_L	0.569	1.00
236_M	259_M	0.565	1.00
150_L	342_V	0.563	1.00
168_P	191_L	0.562	1.00
10_V	15_K	0.562	1.00
238_A	257_L	0.561	1.00
229_C	257_L	0.560	1.00
40_G	44_H	0.560	1.00
39_C	153_P	0.559	1.00
41_S	44_H	0.557	1.00
164_A	263_K	0.557	1.00
159_H	163_L	0.553	1.00
39_C	340_K	0.553	1.00
31_I	136_T	0.553	1.00
171_K	233_T	0.551	1.00
36_V	343_I	0.551	1.00
200_D	219_N	0.549	1.00
132_P	135_F	0.548	1.00
211_Q	312_K	0.547	1.00
80_K	83_P	0.547	1.00
11_P	48_S	0.547	1.00
173_I	241_V	0.546	1.00
74_V	85_D	0.546	1.00
14_M	328_F	0.546	1.00
187_A	191_L	0.546	1.00
22_P	128_Y	0.545	1.00
200_D	209_A	0.545	1.00
328_F	332_V	0.545	1.00
22_P	28_E	0.544	1.00
200_D	220_G	0.542	1.00
38_I	343_I	0.541	1.00
79_R	82_K	0.540	1.00
230_Q	237_G	0.539	1.00
172_I	240_I	0.537	1.00
230_Q	233_T	0.536	1.00
250_T	253_Q	0.535	1.00
317_H	323_D	0.534	1.00
64_G	125_L	0.534	1.00
182_L	212_L	0.533	1.00
231_Q	234_E	0.532	1.00
93_V	135_F	0.530	1.00
241_V	257_L	0.529	1.00
183_M	187_A	0.527	1.00
161_A	187_A	0.527	1.00
185_L	209_A	0.526	1.00
206_L	209_A	0.526	1.00
319_Y	326_Q	0.523	1.00
250_T	254_A	0.522	1.00
133_E	136_T	0.522	1.00
265_M	290_V	0.521	1.00
316_T	339_I	0.520	1.00
312_K	315_V	0.519	1.00
186_Q	309_F	0.518	1.00
327_A	343_I	0.515	1.00
183_M	309_F	0.514	1.00
282_N	291_F	0.514	1.00
156_V	267_V	0.514	1.00
160_A	290_V	0.513	1.00
21_I	130_C	0.513	1.00
298_P	301_I	0.513	1.00
251_V	266_I	0.513	1.00
20_E	23_V	0.509	1.00
174_I	185_L	0.508	1.00
33_V	89_I	0.507	1.00
200_D	205_R	0.507	1.00
89_I	124_A	0.507	1.00
66_E	153_P	0.507	1.00
56_D	59_Q	0.506	1.00
66_E	340_K	0.506	1.00
233_T	238_A	0.504	1.00
80_K	138_K	0.501	1.00
144_D	148_G	0.501	1.00
171_K	216_V	0.501	1.00
265_M	288_Q	0.501	1.00
159_H	290_V	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
4ilkA	2	0.9654	100	0.156	Contact Map
4ej6A	1	0.9683	100	0.156	Contact Map
3m6iA	4	0.9856	100	0.162	Contact Map
3ukoA	4	0.9798	100	0.165	Contact Map
2dq4A	4	0.9712	100	0.166	Contact Map
1e3iA	2	0.9712	100	0.167	Contact Map
3ip1A	4	0.9741	100	0.174	Contact Map
1cdoA	2	0.9741	100	0.175	Contact Map
1f8fA	4	0.9683	100	0.178	Contact Map
1e3jA	4	0.9856	100	0.178	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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