YDJL - ECOLI - GREMLIN Contacts

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YDJL - Uncharacterized zinc-type alcohol dehydrogenase-like protein YdjL

UniProt:	P77539	Sequences: MKALARFGKAFGGYKMIDVPQPMCGPEDVVIEIKAAAICGADMKHYNVDSGSDEFNSIRGHEFAGCIAQVGEKVKDWKVGQRVVSDNSGHVCGVCPACEQGDFLCCTEKVNLGLDNNTWGGGFSKYCLVPGEILKIHRHALWEIPDGVDYEDAAVLDPICNAYKSIAQQSKFLPGQDVVVIGTGPLGLFSVQMARIMGAVNIVVVGLQEDVAVRFPVAKELGATAVVNGSTEDVVARCQQICGKDNLGLVIECSGANIALKQAIEMLRPNGEVVRVGMGFKPLDFSINDITAWNKSIIGHMAYDSTSWRNAIRLLASGAIKVKPMITHRIGLSQWREGFDAMVDKTAIKVIMTYDFDE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13488
Length:	358 (303)
Sequences:	52680 (36393)
Seq/√Len:	2090.7

ECOLI - YDJL YBDR GATD TDH RSPB FRMA YDJJ YPHC YGGP YJJN ADHP AHR YAHK IDND YCJQ QOR1 ACUI CURA
BACSU - YJMD TDH ADHB DHSO YYCR BDHA ADHA YOGA YHFP YFMJ
HALSA - Q9HMB6 Q9HP38 GLCDH Q9HR85 Q9HQS8
SULSO - Q97YT7 ADH Q97VV5 Q97XR4 Q7LXK1 Q97ZV3 Q97TZ4 Q97VW0 Q97V32 Q97WA1 Q97YM2 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_K	150_Y	2.977	1.00
32_E	68_A	2.908	1.00
334_Q	337_E	2.841	1.00
34_K	66_C	2.838	1.00
7_F	17_I	2.574	1.00
30_V	68_A	2.559	1.00
149_D	152_D	2.428	1.00
78_K	81_Q	2.406	1.00
29_V	141_L	2.397	1.00
81_Q	143_E	2.338	1.00
195_R	224_T	2.327	1.00
82_R	144_I	2.291	1.00
21_Q	126_Y	2.274	1.00
151_E	329_R	2.250	1.00
177_D	200_V	2.248	1.00
237_R	240_Q	2.218	1.00
330_I	341_A	2.216	1.00
32_E	66_C	2.203	1.00
7_F	15_K	2.180	1.00
32_E	126_Y	2.168	1.00
329_R	353_T	2.168	1.00
328_H	341_A	2.143	1.00
178_V	194_A	2.111	1.00
173_L	176_Q	2.080	1.00
26_P	72_E	2.063	1.00
5_A	17_I	2.041	1.00
215_F	219_K	2.040	1.00
26_P	73_K	2.018	1.00
76_D	131_G	2.015	1.00
147_G	316_A	2.009	1.00
25_G	28_D	2.003	1.00
313_R	317_S	1.981	1.00
331_G	334_Q	1.967	1.00
63_F	85_S	1.963	1.00
216_P	220_E	1.951	1.00
63_F	122_G	1.921	1.00
191_V	223_A	1.892	1.00
27_E	73_K	1.891	1.00
30_V	128_L	1.884	1.00
340_D	344_D	1.880	1.00
68_A	126_Y	1.870	1.00
47_N	343_V	1.868	1.00
64_A	150_Y	1.834	1.00
216_P	219_K	1.829	1.00
82_R	150_Y	1.814	1.00
196_I	319_A	1.783	1.00
159_I	189_F	1.761	1.00
209_E	216_P	1.718	1.00
179_V	205_V	1.714	1.00
23_M	69_Q	1.698	1.00
248_G	268_R	1.697	1.00
341_A	346_T	1.689	1.00
272_E	296_S	1.684	1.00
337_E	340_D	1.680	1.00
215_F	226_V	1.676	1.00
179_V	247_L	1.667	1.00
144_I	150_Y	1.620	1.00
337_E	341_A	1.618	1.00
203_V	247_L	1.614	1.00
217_V	220_E	1.610	1.00
225_A	241_I	1.603	1.00
272_E	298_I	1.589	1.00
206_G	215_F	1.580	1.00
152_D	323_K	1.551	1.00
330_I	338_G	1.532	1.00
30_V	126_Y	1.524	1.00
151_E	353_T	1.524	1.00
4_L	335_W	1.517	1.00
69_Q	79_V	1.506	1.00
144_I	153_A	1.497	1.00
66_C	82_R	1.493	1.00
267_L	273_V	1.492	1.00
70_V	79_V	1.491	1.00
209_E	231_T	1.487	1.00
28_D	130_P	1.469	1.00
267_L	295_K	1.467	1.00
181_I	263_A	1.465	1.00
232_E	237_R	1.460	1.00
176_Q	272_E	1.449	1.00
77_W	143_E	1.446	1.00
77_W	81_Q	1.439	1.00
27_E	130_P	1.432	1.00
170_S	249_L	1.424	1.00
24_C	128_L	1.421	1.00
250_V	267_L	1.417	1.00
336_R	340_D	1.417	1.00
233_D	236_A	1.403	1.00
71_G	74_V	1.396	1.00
209_E	228_N	1.395	1.00
267_L	271_G	1.395	1.00
33_I	63_F	1.393	1.00
28_D	128_L	1.386	1.00
30_V	69_Q	1.379	1.00
228_N	231_T	1.370	1.00
207_L	229_G	1.366	1.00
123_F	339_F	1.363	1.00
200_V	225_A	1.358	1.00
250_V	263_A	1.358	1.00
35_A	353_T	1.356	1.00
24_C	30_V	1.349	1.00
82_R	146_D	1.344	1.00
35_A	151_E	1.332	1.00
327_T	341_A	1.313	1.00
183_T	204_V	1.308	1.00
67_I	77_W	1.296	1.00
200_V	224_T	1.294	1.00
313_R	316_A	1.294	1.00
29_V	77_W	1.290	1.00
3_A	19_V	1.290	1.00
236_A	240_Q	1.290	1.00
196_I	314_L	1.287	1.00
177_D	203_V	1.276	1.00
66_C	150_Y	1.263	1.00
208_Q	213_V	1.258	1.00
191_V	204_V	1.253	1.00
190_S	251_I	1.230	1.00
4_L	16_M	1.200	1.00
34_K	82_R	1.199	1.00
156_L	315_L	1.196	1.00
181_I	205_V	1.191	1.00
46_Y	339_F	1.190	1.00
77_W	141_L	1.179	1.00
168_Q	307_S	1.176	1.00
237_R	241_I	1.175	1.00
21_Q	30_V	1.170	1.00
33_I	127_C	1.163	1.00
220_E	324_P	1.154	1.00
27_E	131_G	1.127	1.00
305_S	309_R	1.127	1.00
219_K	226_V	1.126	1.00
8_G	13_G	1.122	1.00
177_D	248_G	1.117	1.00
183_T	206_G	1.112	1.00
207_L	230_S	1.103	1.00
168_Q	310_N	1.095	1.00
314_L	319_A	1.087	1.00
172_F	199_A	1.085	1.00
215_F	228_N	1.084	1.00
265_E	289_D	1.082	1.00
310_N	313_R	1.073	1.00
235_V	265_E	1.073	1.00
331_G	353_T	1.070	1.00
335_W	352_M	1.065	1.00
129_V	141_L	1.056	1.00
31_I	65_G	1.054	1.00
176_Q	248_G	1.039	1.00
31_I	83_V	1.035	1.00
233_D	237_R	1.030	1.00
68_A	79_V	1.029	1.00
16_M	333_S	1.027	1.00
164_K	307_S	1.019	1.00
5_A	19_V	1.018	1.00
203_V	225_A	1.017	1.00
38_I	338_G	1.001	1.00
162_A	190_S	1.000	1.00
217_V	347_A	0.998	1.00
24_C	28_D	0.997	1.00
169_Q	296_S	0.996	1.00
172_F	176_Q	0.992	1.00
46_Y	343_V	0.990	1.00
132_E	140_A	0.988	1.00
35_A	150_Y	0.986	1.00
36_A	123_F	0.984	1.00
170_S	274_V	0.982	1.00
254_S	259_A	0.978	1.00
204_V	223_A	0.973	1.00
309_R	313_R	0.972	1.00
4_L	332_L	0.972	1.00
235_V	262_Q	0.965	1.00
194_A	199_A	0.962	1.00
262_Q	265_E	0.960	1.00
209_E	215_F	0.960	1.00
231_T	237_R	0.960	1.00
341_A	350_V	0.958	1.00
340_D	343_V	0.951	1.00
289_D	293_W	0.949	1.00
74_V	131_G	0.948	1.00
163_Y	310_N	0.933	1.00
34_K	64_A	0.931	1.00
123_F	335_W	0.928	1.00
219_K	225_A	0.924	1.00
165_S	276_V	0.920	1.00
204_V	218_A	0.918	1.00
159_I	311_A	0.915	1.00
148_V	153_A	0.915	1.00
235_V	239_Q	0.914	1.00
162_A	193_M	0.914	1.00
75_K	131_G	0.911	1.00
208_Q	228_N	0.910	1.00
261_K	265_E	0.907	1.00
191_V	202_I	0.898	1.00
310_N	314_L	0.894	1.00
43_M	342_M	0.885	1.00
165_S	251_I	0.885	1.00
330_I	334_Q	0.883	1.00
179_V	266_M	0.883	1.00
238_C	247_L	0.881	1.00
5_A	58_I	0.879	1.00
35_A	351_I	0.877	1.00
8_G	12_G	0.872	1.00
57_S	120_G	0.871	1.00
21_Q	69_Q	0.871	1.00
213_V	216_P	0.868	1.00
39_C	62_E	0.864	1.00
214_R	347_A	0.861	1.00
205_V	229_G	0.861	1.00
36_A	122_G	0.860	1.00
203_V	227_V	0.860	1.00
188_L	217_V	0.858	1.00
242_C	246_N	0.853	1.00
84_V	312_I	0.853	1.00
176_Q	249_L	0.851	1.00
32_E	125_K	0.847	1.00
180_V	194_A	0.846	1.00
252_E	255_G	0.845	1.00
70_V	74_V	0.844	1.00
180_V	190_S	0.843	1.00
21_Q	68_A	0.833	1.00
181_I	250_V	0.832	1.00
78_K	143_E	0.832	1.00
7_F	13_G	0.830	1.00
290_I	297_I	0.829	1.00
3_A	58_I	0.829	1.00
206_G	226_V	0.827	1.00
208_Q	214_R	0.826	1.00
70_V	78_K	0.824	1.00
169_Q	298_I	0.820	1.00
306_T	310_N	0.818	1.00
4_L	14_Y	0.815	1.00
193_M	311_A	0.809	1.00
37_A	62_E	0.808	1.00
63_F	127_C	0.808	1.00
270_N	294_N	0.808	1.00
258_I	262_Q	0.808	1.00
177_D	247_L	0.804	1.00
207_L	215_F	0.803	1.00
123_F	352_M	0.801	1.00
160_C	307_S	0.796	1.00
23_M	30_V	0.795	1.00
146_D	316_A	0.794	1.00
39_C	61_H	0.793	1.00
178_V	199_A	0.789	1.00
38_I	342_M	0.783	1.00
203_V	241_I	0.781	1.00
306_T	309_R	0.780	1.00
234_V	262_Q	0.779	1.00
250_V	273_V	0.778	1.00
209_E	213_V	0.776	1.00
236_A	239_Q	0.774	1.00
166_I	194_A	0.772	1.00
181_I	259_A	0.768	1.00
183_T	218_A	0.767	1.00
142_W	309_R	0.766	1.00
263_A	273_V	0.761	1.00
314_L	317_S	0.760	1.00
171_K	272_E	0.759	1.00
193_M	314_L	0.750	1.00
197_M	310_N	0.750	1.00
19_V	58_I	0.750	1.00
290_I	299_G	0.749	1.00
29_V	131_G	0.748	1.00
218_A	223_A	0.748	1.00
25_G	128_L	0.746	1.00
261_K	282_P	0.736	1.00
19_V	120_G	0.735	1.00
328_H	337_E	0.734	1.00
194_A	202_I	0.733	1.00
16_M	332_L	0.732	1.00
203_V	238_C	0.729	1.00
85_S	129_V	0.729	1.00
342_M	350_V	0.728	1.00
233_D	262_Q	0.727	1.00
330_I	350_V	0.726	1.00
235_V	266_M	0.725	1.00
122_G	127_C	0.725	1.00
83_V	141_L	0.724	1.00
24_C	69_Q	0.724	1.00
165_S	190_S	0.723	1.00
27_E	71_G	0.722	1.00
84_V	144_I	0.719	1.00
330_I	352_M	0.719	1.00
341_A	344_D	0.718	1.00
162_A	189_F	0.717	1.00
148_V	315_L	0.717	1.00
41_A	61_H	0.714	1.00
202_I	224_T	0.711	1.00
200_V	203_V	0.708	1.00
172_F	249_L	0.706	1.00
314_L	318_G	0.705	1.00
27_E	72_E	0.705	1.00
171_K	296_S	0.704	1.00
199_A	249_L	0.702	1.00
275_R	297_I	0.700	1.00
253_C	276_V	0.699	1.00
290_I	295_K	0.698	1.00
247_L	250_V	0.693	1.00
64_A	154_A	0.691	1.00
76_D	305_S	0.689	1.00
163_Y	311_A	0.685	1.00
164_K	294_N	0.685	1.00
145_P	316_A	0.684	1.00
39_C	42_D	0.684	1.00
171_K	298_I	0.683	1.00
312_I	316_A	0.675	1.00
142_W	308_W	0.675	1.00
163_Y	314_L	0.672	1.00
282_P	286_S	0.671	1.00
180_V	204_V	0.671	1.00
326_I	329_R	0.670	1.00
27_E	132_E	0.667	1.00
4_L	336_R	0.666	1.00
328_H	350_V	0.659	1.00
249_L	274_V	0.657	1.00
217_V	221_L	0.656	1.00
286_S	289_D	0.654	1.00
6_R	13_G	0.652	1.00
163_Y	307_S	0.650	1.00
269_P	293_W	0.650	1.00
162_A	186_L	0.649	1.00
260_L	273_V	0.646	1.00
43_M	343_V	0.645	1.00
53_D	57_S	0.644	1.00
29_V	67_I	0.644	1.00
33_I	36_A	0.643	1.00
34_K	353_T	0.642	1.00
206_G	218_A	0.642	1.00
199_A	202_I	0.642	1.00
252_E	273_V	0.638	1.00
12_G	340_D	0.638	1.00
54_E	57_S	0.638	1.00
64_A	144_I	0.637	1.00
81_Q	146_D	0.634	1.00
11_F	340_D	0.632	1.00
22_P	128_L	0.629	1.00
8_G	11_F	0.629	1.00
175_G	200_V	0.629	1.00
24_C	71_G	0.629	1.00
261_K	289_D	0.629	1.00
191_V	221_L	0.625	1.00
162_A	166_I	0.625	1.00
193_M	197_M	0.625	1.00
31_I	85_S	0.625	1.00
256_A	259_A	0.624	1.00
35_A	64_A	0.624	1.00
31_I	141_L	0.624	1.00
192_Q	221_L	0.623	1.00
195_R	202_I	0.623	1.00
238_C	266_M	0.623	1.00
223_A	226_V	0.621	1.00
84_V	157_D	0.621	1.00
225_A	237_R	0.620	1.00
294_N	304_D	0.618	1.00
142_W	312_I	0.616	1.00
177_D	245_D	0.615	1.00
8_G	15_K	0.615	1.00
161_N	186_L	0.613	1.00
44_K	49_D	0.608	1.00
41_A	45_H	0.606	1.00
64_A	82_R	0.606	1.00
245_D	268_R	0.605	1.00
282_P	285_F	0.602	1.00
158_P	185_P	0.602	1.00
82_R	147_G	0.601	1.00
158_P	189_F	0.600	1.00
35_A	329_R	0.596	1.00
168_Q	197_M	0.596	1.00
188_L	325_M	0.595	1.00
155_V	351_I	0.594	1.00
215_F	218_A	0.594	1.00
156_L	311_A	0.593	1.00
76_D	79_V	0.592	1.00
328_H	347_A	0.591	1.00
38_I	123_F	0.591	1.00
190_S	276_V	0.590	1.00
191_V	218_A	0.589	1.00
39_C	158_P	0.589	1.00
22_P	126_Y	0.586	1.00
170_S	272_E	0.586	1.00
261_K	284_D	0.584	1.00
142_W	305_S	0.583	1.00
206_G	229_G	0.581	1.00
85_S	141_L	0.580	1.00
183_T	191_V	0.578	1.00
249_L	272_E	0.573	1.00
76_D	143_E	0.572	1.00
247_L	266_M	0.572	1.00
220_E	323_K	0.571	1.00
217_V	325_M	0.571	1.00
179_V	250_V	0.570	1.00
234_V	238_C	0.569	1.00
86_D	142_W	0.567	1.00
178_V	249_L	0.566	1.00
339_F	343_V	0.566	1.00
43_M	47_N	0.564	1.00
75_K	78_K	0.564	1.00
70_V	81_Q	0.559	1.00
40_G	44_K	0.559	1.00
327_T	348_I	0.555	1.00
39_C	349_K	0.551	1.00
41_A	44_K	0.551	1.00
227_V	241_I	0.549	1.00
243_G	246_N	0.548	1.00
45_H	50_S	0.546	1.00
165_S	274_V	0.546	1.00
36_A	352_M	0.545	1.00
250_V	266_M	0.542	1.00
174_P	198_G	0.542	1.00
130_P	140_A	0.540	1.00
21_Q	128_L	0.539	1.00
239_Q	246_N	0.538	1.00
289_D	295_K	0.538	1.00
183_T	214_R	0.538	1.00
174_P	197_M	0.537	1.00
161_N	276_V	0.535	1.00
289_D	292_A	0.535	1.00
259_A	263_A	0.534	1.00
300_H	303_Y	0.533	1.00
22_P	28_D	0.533	1.00
227_V	237_R	0.532	1.00
13_G	336_R	0.532	1.00
239_Q	242_C	0.531	1.00
14_Y	339_F	0.531	1.00
177_D	242_C	0.530	1.00
188_L	221_L	0.529	1.00
205_V	227_V	0.528	1.00
38_I	352_M	0.528	1.00
338_G	352_M	0.527	1.00
307_S	310_N	0.526	1.00
60_G	123_F	0.525	1.00
165_S	300_H	0.525	1.00
274_V	300_H	0.524	1.00
64_A	153_A	0.523	1.00
149_D	153_A	0.522	1.00
258_I	261_K	0.522	1.00
192_Q	320_I	0.521	1.00
77_W	131_G	0.520	1.00
189_F	193_M	0.519	1.00
180_V	191_V	0.518	1.00
166_I	193_M	0.516	1.00
308_W	312_I	0.515	1.00
62_E	349_K	0.513	1.00
20_P	23_M	0.513	1.00
288_N	291_T	0.513	1.00
85_S	122_G	0.510	1.00
163_Y	197_M	0.509	1.00
350_V	353_T	0.506	1.00
168_Q	306_T	0.506	1.00
218_A	226_V	0.506	1.00
214_R	346_T	0.505	1.00
206_G	228_N	0.504	1.00
58_I	121_G	0.503	1.00
40_G	184_G	0.502	1.00
252_E	277_G	0.500	1.00
242_C	247_L	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
4ej6A	1	0.9358	100	0.156	Contact Map
2dq4A	4	0.9441	100	0.158	Contact Map
3ukoA	4	0.9553	100	0.162	Contact Map
4ilkA	2	0.9274	100	0.164	Contact Map
1e3iA	2	0.9469	100	0.166	Contact Map
1cdoA	2	0.9497	100	0.168	Contact Map
1vj0A	4	0.9553	100	0.169	Contact Map
3ip1A	4	0.9497	100	0.172	Contact Map
1f8fA	4	0.9469	100	0.174	Contact Map
4oh1A	4	0.9302	100	0.174	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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