YPHC - ECOLI - GREMLIN Contacts

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YPHC - Uncharacterized zinc-type alcohol dehydrogenase-like protein YphC

UniProt:	P77360	Sequences: MKTMLAAYLPGNSTVDLREVAVPTPGINQVLIKMKSSGICGSDVHYIYHQHRATAAAPDKPLYQGFINGHEPCGQIVAMGQGCRHFKEGDRVLVYHISGCGFCPNCRRGFPISCTGEGKAAYGWQRDGGHAEYLLAEEKDLILLPDALSYEDGAFISCGVGTAYEGILRGEVSGSDNVLVVGLGPVGMMAMMLAKGRGAKRIIGVDMLPERLAMAKQLGVMDHGYLATTEGLPQIIAELTHGGADVALDCSGNAAGRLLALQSTADWGRVVYIGETGKVEFEVSADLMHHQRRIIGSWVTSLFHMEKCAHDLTDWKLWPRNAITHRFSLEQAGDAYALMASGKCGKVVINFPD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13464
Length:	353 (305)
Sequences:	52810 (36427)
Seq/√Len:	2085.8

ECOLI - YPHC YBDR AHR YJJN YDJL YDJJ RSPB FRMA TDH GATD ADHP YGGP YAHK IDND YCJQ ACUI QOR1 CURA
BACSU - YYCR ADHB YJMD DHSO TDH ADHA BDHA YOGA YHFP YFMJ
HALSA - Q9HMB6 Q9HP38 GLCDH Q9HR85 Q9HQS8
SULSO - Q97YT7 Q97VV5 ADH Q97ZV3 Q7LXK1 Q97XR4 Q97VW0 Q97WA1 Q97TZ4 Q97V32 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
35_K	150_Y	2.940	1.00
33_K	77_V	2.900	1.00
331_Q	334_D	2.860	1.00
35_K	75_Q	2.812	1.00
10_P	18_R	2.655	1.00
31_L	77_V	2.639	1.00
177_N	201_R	2.524	1.00
30_V	141_L	2.469	1.00
91_R	144_L	2.441	1.00
87_K	90_D	2.410	1.00
90_D	143_L	2.388	1.00
149_S	152_D	2.377	1.00
327_F	338_L	2.288	1.00
72_P	129_G	2.282	1.00
33_K	75_Q	2.255	1.00
151_E	326_R	2.247	1.00
22_V	133_Y	2.223	1.00
183_L	204_G	2.201	1.00
10_P	16_D	2.184	1.00
235_I	238_E	2.182	1.00
33_K	133_Y	2.172	1.00
173_S	176_D	2.160	1.00
213_A	217_Q	2.145	1.00
178_V	194_A	2.113	1.00
325_H	338_L	2.098	1.00
212_L	216_K	2.091	1.00
8_Y	18_R	2.066	1.00
191_M	220_V	2.023	1.00
26_G	29_Q	2.013	1.00
326_R	350_N	2.013	1.00
72_P	94_V	2.009	1.00
27_I	81_Q	1.995	1.00
85_H	138_E	1.993	1.00
168_L	197_R	1.992	1.00
310_H	314_D	1.981	1.00
27_I	82_G	1.942	1.00
147_A	313_T	1.939	1.00
73_C	150_Y	1.872	1.00
28_N	82_G	1.871	1.00
337_A	341_S	1.864	1.00
91_R	150_Y	1.861	1.00
160_V	189_M	1.845	1.00
328_S	331_Q	1.837	1.00
31_L	135_L	1.835	1.00
77_V	133_Y	1.834	1.00
48_Y	340_A	1.826	1.00
179_L	205_V	1.766	1.00
213_A	216_K	1.763	1.00
179_L	244_A	1.754	1.00
168_L	307_K	1.751	1.00
196_G	316_K	1.748	1.00
206_D	212_L	1.691	1.00
245_D	265_A	1.689	1.00
269_R	293_R	1.685	1.00
338_L	343_K	1.683	1.00
334_D	337_A	1.676	1.00
195_K	222_D	1.675	1.00
203_I	244_A	1.672	1.00
24_T	78_A	1.666	1.00
144_L	150_Y	1.655	1.00
269_R	295_I	1.625	1.00
327_F	335_A	1.612	1.00
144_L	153_G	1.611	1.00
176_D	269_R	1.604	1.00
201_R	222_D	1.594	1.00
334_D	338_L	1.591	1.00
209_P	213_A	1.582	1.00
181_V	260_A	1.580	1.00
214_M	217_Q	1.541	1.00
264_T	270_V	1.533	1.00
80_G	83_C	1.515	1.00
7_A	332_A	1.512	1.00
79_M	88_E	1.484	1.00
86_F	143_L	1.482	1.00
31_L	133_Y	1.482	1.00
264_T	292_R	1.481	1.00
151_E	350_N	1.467	1.00
86_F	90_D	1.467	1.00
130_H	336_Y	1.466	1.00
78_A	88_E	1.465	1.00
5_L	19_E	1.464	1.00
75_Q	91_R	1.463	1.00
230_E	235_I	1.456	1.00
29_Q	137_E	1.448	1.00
34_M	72_P	1.444	1.00
170_G	246_V	1.436	1.00
25_P	135_L	1.412	1.00
28_N	137_E	1.401	1.00
264_T	268_G	1.401	1.00
333_G	337_A	1.393	1.00
25_P	31_L	1.388	1.00
231_G	234_Q	1.385	1.00
247_A	264_T	1.377	1.00
91_R	146_D	1.375	1.00
31_L	78_A	1.368	1.00
29_Q	135_L	1.363	1.00
212_L	224_G	1.361	1.00
247_A	260_A	1.361	1.00
47_I	336_Y	1.326	1.00
209_P	226_L	1.324	1.00
76_I	86_F	1.321	1.00
30_V	86_F	1.319	1.00
5_L	132_E	1.318	1.00
36_S	151_E	1.316	1.00
324_T	338_L	1.311	1.00
5_L	330_E	1.309	1.00
223_H	239_L	1.308	1.00
6_A	20_V	1.295	1.00
75_Q	150_Y	1.269	1.00
310_H	313_T	1.267	1.00
234_Q	238_E	1.266	1.00
191_M	204_G	1.263	1.00
196_G	311_D	1.260	1.00
177_N	203_I	1.254	1.00
190_A	248_L	1.248	1.00
7_A	17_L	1.247	1.00
181_V	205_V	1.241	1.00
164_Y	168_L	1.230	1.00
226_L	229_T	1.223	1.00
201_R	223_H	1.221	1.00
207_M	212_L	1.210	1.00
156_I	312_L	1.200	1.00
35_K	91_R	1.194	1.00
86_F	141_L	1.168	1.00
209_P	212_L	1.158	1.00
229_T	235_I	1.157	1.00
328_S	350_N	1.154	1.00
22_V	31_L	1.151	1.00
34_M	134_L	1.147	1.00
192_M	318_W	1.144	1.00
207_M	227_A	1.140	1.00
172_V	199_A	1.139	1.00
177_N	245_D	1.136	1.00
209_P	229_T	1.129	1.00
28_N	138_E	1.127	1.00
36_S	350_N	1.108	1.00
11_G	14_T	1.105	1.00
136_A	141_L	1.091	1.00
262_Q	286_D	1.087	1.00
235_I	239_L	1.081	1.00
307_K	310_H	1.081	1.00
176_D	245_D	1.069	1.00
32_I	74_G	1.067	1.00
170_G	271_V	1.063	1.00
311_D	316_K	1.044	1.00
165_E	304_H	1.043	1.00
168_L	304_H	1.038	1.00
39_I	335_A	1.036	1.00
77_V	88_E	1.034	1.00
47_I	340_A	1.021	1.00
7_A	329_L	1.018	1.00
231_G	235_I	1.016	1.00
163_A	190_A	1.009	1.00
25_P	29_Q	1.008	1.00
332_A	349_I	1.006	1.00
152_D	318_W	1.006	1.00
32_I	92_V	0.998	1.00
233_P	262_Q	0.997	1.00
36_S	150_Y	0.997	1.00
251_S	256_G	0.995	1.00
216_K	224_G	0.992	1.00
40_C	71_E	0.984	1.00
17_L	330_E	0.980	1.00
306_E	310_H	0.980	1.00
240_T	243_G	0.974	1.00
163_A	193_L	0.974	1.00
204_G	220_V	0.972	1.00
37_S	130_H	0.970	1.00
194_A	199_A	0.967	1.00
8_Y	20_V	0.965	1.00
172_V	176_D	0.963	1.00
35_K	73_C	0.954	1.00
338_L	347_V	0.953	1.00
37_S	129_G	0.953	1.00
183_L	206_D	0.953	1.00
233_P	259_L	0.950	1.00
212_L	226_L	0.949	1.00
166_G	273_I	0.948	1.00
160_V	308_C	0.943	1.00
337_A	340_A	0.935	1.00
83_C	138_E	0.932	1.00
259_L	262_Q	0.930	1.00
164_Y	307_K	0.929	1.00
40_C	70_H	0.919	1.00
44_V	339_M	0.918	1.00
130_H	332_A	0.918	1.00
36_S	348_V	0.916	1.00
191_M	202_I	0.909	1.00
249_D	252_G	0.907	1.00
208_L	211_R	0.903	1.00
10_P	14_T	0.903	1.00
258_L	262_Q	0.898	1.00
20_V	127_D	0.891	1.00
180_V	190_A	0.888	1.00
207_M	228_T	0.880	1.00
66_F	127_D	0.879	1.00
183_L	215_A	0.877	1.00
8_Y	67_I	0.876	1.00
84_R	138_E	0.874	1.00
327_F	331_Q	0.874	1.00
204_G	215_A	0.874	1.00
148_L	153_G	0.873	1.00
236_I	244_A	0.872	1.00
179_L	263_S	0.871	1.00
233_P	237_A	0.870	1.00
181_V	247_A	0.870	1.00
166_G	248_L	0.870	1.00
79_M	83_C	0.867	1.00
188_M	214_M	0.867	1.00
183_L	191_M	0.866	1.00
22_V	78_A	0.865	1.00
307_K	311_D	0.863	1.00
180_V	194_A	0.860	1.00
33_K	132_E	0.857	1.00
93_L	309_A	0.846	1.00
176_D	246_V	0.844	1.00
87_K	143_L	0.840	1.00
72_P	134_L	0.839	1.00
130_H	349_I	0.836	1.00
193_L	308_C	0.834	1.00
38_G	71_E	0.824	1.00
210_E	213_A	0.823	1.00
161_G	304_H	0.820	1.00
22_V	77_V	0.817	1.00
267_W	291_Q	0.816	1.00
28_N	80_G	0.809	1.00
177_N	244_A	0.809	1.00
7_A	15_V	0.808	1.00
24_T	31_L	0.806	1.00
287_L	294_I	0.800	1.00
5_L	17_L	0.799	1.00
303_F	307_K	0.796	1.00
167_I	194_A	0.794	1.00
163_A	189_M	0.793	1.00
39_I	339_M	0.789	1.00
319_P	322_A	0.786	1.00
286_D	290_H	0.785	1.00
79_M	87_K	0.784	1.00
197_R	307_K	0.779	1.00
146_D	313_T	0.778	1.00
6_A	67_I	0.775	1.00
207_M	215_A	0.772	1.00
232_L	259_L	0.770	1.00
142_I	306_E	0.769	1.00
203_I	239_L	0.768	1.00
40_C	43_D	0.768	1.00
94_V	136_A	0.762	1.00
339_M	347_V	0.762	1.00
215_A	220_V	0.760	1.00
178_V	199_A	0.759	1.00
344_C	347_V	0.758	1.00
181_V	256_G	0.756	1.00
303_F	306_E	0.751	1.00
247_A	270_V	0.750	1.00
260_A	270_V	0.749	1.00
193_L	311_D	0.747	1.00
203_I	236_I	0.747	1.00
26_G	135_L	0.746	1.00
224_G	227_A	0.744	1.00
171_E	269_R	0.744	1.00
208_L	226_L	0.740	1.00
231_G	259_L	0.740	1.00
250_C	273_I	0.740	1.00
30_V	138_E	0.740	1.00
287_L	296_G	0.733	1.00
166_G	190_A	0.731	1.00
311_D	314_D	0.730	1.00
172_V	246_V	0.728	1.00
327_F	347_V	0.728	1.00
92_V	141_L	0.728	1.00
42_S	70_H	0.727	1.00
194_A	202_I	0.725	1.00
272_Y	294_I	0.724	1.00
325_H	334_D	0.724	1.00
311_D	315_W	0.724	1.00
17_L	329_L	0.724	1.00
73_C	154_A	0.722	1.00
148_L	312_L	0.722	1.00
168_L	193_L	0.721	1.00
20_V	67_I	0.720	1.00
233_P	263_S	0.717	1.00
25_P	78_A	0.716	1.00
7_A	333_G	0.715	1.00
163_A	186_V	0.714	1.00
93_L	144_L	0.709	1.00
338_L	341_S	0.706	1.00
129_G	134_L	0.705	1.00
171_E	295_I	0.700	1.00
165_E	291_Q	0.699	1.00
28_N	81_Q	0.697	1.00
203_I	223_H	0.697	1.00
234_Q	237_A	0.688	1.00
327_F	349_I	0.687	1.00
309_A	313_T	0.674	1.00
205_V	227_A	0.673	1.00
180_V	204_G	0.672	1.00
203_I	225_Y	0.671	1.00
142_I	305_M	0.671	1.00
244_A	247_A	0.671	1.00
323_I	326_R	0.670	1.00
164_Y	308_C	0.668	1.00
25_P	80_G	0.667	1.00
145_P	313_T	0.666	1.00
164_Y	311_D	0.665	1.00
159_G	185_P	0.665	1.00
216_K	223_H	0.664	1.00
199_A	202_I	0.661	1.00
40_C	158_C	0.660	1.00
199_A	246_V	0.657	1.00
28_N	139_K	0.657	1.00
162_T	186_V	0.656	1.00
90_D	146_D	0.654	1.00
325_H	347_V	0.651	1.00
258_L	286_D	0.651	1.00
163_A	167_I	0.649	1.00
30_V	76_I	0.649	1.00
9_L	14_T	0.648	1.00
246_V	271_V	0.648	1.00
257_R	270_V	0.647	1.00
249_D	270_V	0.646	1.00
216_K	222_D	0.646	1.00
39_I	130_H	0.642	1.00
171_E	293_R	0.642	1.00
214_M	218_L	0.641	1.00
266_D	290_H	0.640	1.00
91_R	147_A	0.640	1.00
73_C	144_L	0.640	1.00
258_L	280_E	0.638	1.00
142_I	309_A	0.638	1.00
40_C	159_G	0.635	1.00
214_M	322_A	0.635	1.00
45_H	50_Q	0.632	1.00
93_L	157_S	0.632	1.00
36_S	73_C	0.630	1.00
254_A	258_L	0.629	1.00
195_K	202_I	0.628	1.00
23_P	135_L	0.628	1.00
192_M	218_L	0.628	1.00
13_S	337_A	0.626	1.00
63_Y	66_F	0.625	1.00
34_M	37_S	0.624	1.00
41_G	45_H	0.624	1.00
70_H	158_C	0.623	1.00
206_D	215_A	0.622	1.00
73_C	91_R	0.622	1.00
12_N	337_A	0.622	1.00
188_M	322_A	0.622	1.00
42_S	46_Y	0.621	1.00
44_V	340_A	0.621	1.00
253_N	256_G	0.620	1.00
164_Y	304_H	0.617	1.00
287_L	292_R	0.616	1.00
169_R	293_R	0.615	1.00
32_I	94_V	0.614	1.00
35_K	350_N	0.613	1.00
236_I	263_S	0.612	1.00
170_G	269_R	0.612	1.00
190_A	273_I	0.608	1.00
191_M	218_L	0.606	1.00
217_Q	318_W	0.605	1.00
94_V	141_L	0.603	1.00
71_E	158_C	0.602	1.00
206_D	224_G	0.600	1.00
36_S	326_R	0.598	1.00
156_I	308_C	0.598	1.00
159_G	189_M	0.598	1.00
246_V	269_R	0.597	1.00
11_G	16_D	0.595	1.00
237_A	240_T	0.591	1.00
336_Y	340_A	0.591	1.00
62_L	66_F	0.591	1.00
169_R	304_H	0.588	1.00
212_L	215_A	0.588	1.00
258_L	282_E	0.583	1.00
305_M	309_A	0.583	1.00
244_A	263_S	0.583	1.00
223_H	226_L	0.582	1.00
338_L	344_C	0.581	1.00
162_T	273_I	0.581	1.00
85_H	88_E	0.581	1.00
155_F	348_V	0.580	1.00
178_V	246_V	0.579	1.00
95_Y	142_I	0.577	1.00
85_H	143_L	0.575	1.00
179_L	247_A	0.573	1.00
46_Y	51_H	0.572	1.00
249_D	274_G	0.571	1.00
195_K	220_V	0.569	1.00
286_D	289_H	0.569	1.00
193_L	197_R	0.568	1.00
32_I	141_L	0.568	1.00
23_P	133_Y	0.567	1.00
155_F	319_P	0.566	1.00
41_G	184_G	0.566	1.00
304_H	307_K	0.566	1.00
237_A	243_G	0.564	1.00
44_V	48_Y	0.563	1.00
232_L	236_I	0.560	1.00
71_E	346_K	0.559	1.00
174_G	198_G	0.558	1.00
191_M	215_A	0.557	1.00
21_A	24_T	0.554	1.00
165_E	169_R	0.554	1.00
84_R	87_K	0.554	1.00
42_S	45_H	0.551	1.00
157_S	162_T	0.549	1.00
40_C	346_K	0.548	1.00
37_S	349_I	0.547	1.00
247_A	263_S	0.547	1.00
256_G	260_A	0.543	1.00
137_E	140_D	0.543	1.00
166_G	297_S	0.541	1.00
79_M	90_D	0.541	1.00
69_G	130_H	0.539	1.00
189_M	317_L	0.539	1.00
271_V	297_S	0.539	1.00
174_G	197_R	0.536	1.00
177_N	240_T	0.536	1.00
23_P	29_Q	0.534	1.00
292_R	296_G	0.534	1.00
73_C	153_G	0.533	1.00
215_A	224_G	0.533	1.00
188_M	218_L	0.533	1.00
22_V	135_L	0.533	1.00
167_I	193_L	0.533	1.00
15_V	336_Y	0.531	1.00
211_R	343_K	0.530	1.00
206_D	211_R	0.529	1.00
149_S	326_R	0.529	1.00
189_M	193_L	0.528	1.00
23_P	31_L	0.527	1.00
324_T	345_G	0.523	1.00
25_P	82_G	0.522	1.00
34_M	94_V	0.522	1.00
312_L	319_P	0.520	1.00
86_F	138_E	0.520	1.00
166_G	271_V	0.519	1.00
94_V	129_G	0.519	1.00
212_L	227_A	0.518	1.00
14_T	333_G	0.517	1.00
39_I	349_I	0.517	1.00
286_D	292_R	0.515	1.00
98_S	140_D	0.514	1.00
280_E	284_S	0.513	1.00
327_F	334_D	0.512	1.00
180_V	191_M	0.512	1.00
289_H	298_W	0.511	1.00
144_L	148_L	0.511	1.00
169_R	295_I	0.510	1.00
67_I	128_G	0.509	1.00
225_Y	235_I	0.506	1.00
325_H	331_Q	0.505	1.00
159_G	346_K	0.503	1.00
191_M	195_K	0.503	1.00
157_S	160_V	0.502	1.00
94_V	134_L	0.501	1.00
164_Y	197_R	0.501	1.00
335_A	349_I	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
3ukoA	4	0.9745	100	0.162	Contact Map
1cdoA	2	0.9688	100	0.165	Contact Map
4ej6A	1	0.9575	100	0.169	Contact Map
1e3iA	2	0.9632	100	0.169	Contact Map
4ilkA	2	0.949	100	0.17	Contact Map
1f8fA	4	0.9632	100	0.175	Contact Map
2dq4A	4	0.9575	100	0.177	Contact Map
2jhfA	2	0.966	100	0.178	Contact Map
4cpdA	2	0.9518	100	0.178	Contact Map
4oh1A	4	0.9575	100	0.18	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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