ENVY - ECOLI - GREMLIN Contacts

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ENVY - Porin thermoregulatory protein EnvY

UniProt:	P10805	Sequences: MQLSSSEPCVVILTEKEVEVSVNNHATFTLPKNYLAAFACNNNVIELSTLNHVLITHINRNIINDYLLFLNKNLTCVKPWSRLATPVIACHSRTPEVFRLAANHSKQQPSRPCEAELTRALLFTVLSNFLEQSRFIALLMYILRSSVRDSVCRIIQSDIQHYWNLRIVASSLCLSPSLLKKKLKNENTSYSQIVTECRMRYAVQMLLMDNKNITQVAQLCGYSSTSYFISVFKAFYGLTPLNYLAKQRQKVMW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10268
Length:	253 (228)
Sequences:	34907 (29937)
Seq/√Len:	1982.6

ECOLI - ENVY ADIY GADX RHAR YQHC YDIP YBCM YPDC RHAS GADW ARAC CHBR FEAR APPY RCLR MELR YIDL YDEO YIJO YEAM EUTR MARA SOXS YKGA ROB XYLR
BACSU - YDEC YISR YFIF YBFI YOBQ BTR YTDP ADAA YESS YDEE YESN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
203_V	236_Y	3.311	1.00
188_T	196_E	3.220	1.00
156_Q	197_C	3.073	1.00
211_K	219_L	3.015	1.00
154_I	158_D	2.721	1.00
166_R	176_P	2.642	1.00
199_M	236_Y	2.614	1.00
196_E	235_F	2.595	1.00
201_Y	204_Q	2.521	1.00
205_M	219_L	2.410	1.00
232_F	243_Y	2.394	1.00
151_V	179_L	2.379	1.00
158_D	161_H	2.326	1.00
202_A	228_F	2.310	1.00
183_L	193_I	2.045	1.00
205_M	220_C	2.034	1.00
159_I	197_C	2.011	1.00
164_N	167_I	1.974	1.00
154_I	171_S	1.959	1.00
19_E	27_T	1.958	1.00
211_K	215_Q	1.912	1.00
238_L	246_K	1.911	1.00
191_S	195_T	1.902	1.00
231_V	234_A	1.825	1.00
205_M	211_K	1.813	1.00
151_V	172_L	1.785	1.00
19_E	29_T	1.783	1.00
225_T	229_I	1.773	1.00
212_N	215_Q	1.759	1.00
155_I	194_V	1.744	1.00
203_V	243_Y	1.742	1.00
21_S	27_T	1.713	1.00
178_L	182_K	1.672	1.00
176_P	180_K	1.669	1.00
165_L	180_K	1.658	1.00
168_V	190_Y	1.649	1.00
31_P	34_Y	1.648	1.00
199_M	235_F	1.636	1.00
188_T	192_Q	1.627	1.00
197_C	201_Y	1.612	1.00
201_Y	205_M	1.591	1.00
14_T	54_L	1.549	1.00
17_E	29_T	1.531	1.00
159_I	201_Y	1.528	1.00
9_C	44_V	1.514	1.00
121_L	124_T	1.510	1.00
204_Q	208_M	1.508	1.00
214_T	225_T	1.497	1.00
152_C	156_Q	1.484	1.00
179_L	190_Y	1.470	1.00
154_I	163_W	1.470	1.00
120_A	124_T	1.463	1.00
206_L	213_I	1.452	1.00
238_L	242_N	1.441	1.00
145_S	186_E	1.433	1.00
177_S	181_K	1.427	1.00
153_R	157_S	1.412	1.00
215_Q	219_L	1.409	1.00
214_T	218_Q	1.396	1.00
215_Q	218_Q	1.390	1.00
202_A	220_C	1.384	1.00
227_Y	231_V	1.383	1.00
15_E	52_H	1.371	1.00
189_S	192_Q	1.369	1.00
196_E	200_R	1.364	1.00
174_L	178_L	1.364	1.00
180_K	190_Y	1.358	1.00
178_L	181_K	1.357	1.00
216_V	220_C	1.356	1.00
201_Y	220_C	1.351	1.00
156_Q	193_I	1.347	1.00
167_I	171_S	1.345	1.00
241_L	245_A	1.338	1.00
197_C	200_R	1.338	1.00
151_V	168_V	1.335	1.00
124_T	128_N	1.333	1.00
120_A	127_S	1.324	1.00
222_Y	231_V	1.314	1.00
195_T	231_V	1.313	1.00
190_Y	194_V	1.307	1.00
17_E	31_P	1.299	1.00
155_I	197_C	1.281	1.00
226_S	229_I	1.244	1.00
147_V	174_L	1.233	1.00
174_L	179_L	1.208	1.00
23_N	42_N	1.206	1.00
19_E	46_E	1.204	1.00
175_S	178_L	1.198	1.00
182_K	186_E	1.192	1.00
160_Q	219_L	1.189	1.00
119_R	123_F	1.183	1.00
120_A	123_F	1.166	1.00
166_R	170_S	1.162	1.00
203_V	207_L	1.150	1.00
39_A	42_N	1.134	1.00
211_K	216_V	1.131	1.00
14_T	52_H	1.119	1.00
200_R	203_V	1.114	1.00
182_K	185_N	1.108	1.00
98_F	104_H	1.106	1.00
195_T	234_A	1.105	1.00
98_F	102_A	1.099	1.00
154_I	172_L	1.092	1.00
229_I	239_T	1.081	1.00
169_A	176_P	1.059	1.00
165_L	190_Y	1.059	1.00
94_T	104_H	1.056	1.00
230_S	234_A	1.051	1.00
241_L	244_L	1.051	1.00
229_I	241_L	1.040	1.00
224_S	230_S	1.036	1.00
146_S	150_S	1.031	1.00
15_E	32_K	1.025	1.00
127_S	131_E	1.020	1.00
155_I	190_Y	1.019	1.00
231_V	235_F	1.019	1.00
96_E	99_R	1.018	1.00
147_V	182_K	1.017	1.00
242_N	245_A	1.002	1.00
213_I	216_V	0.996	1.00
209_D	244_L	0.989	1.00
99_R	103_N	0.987	1.00
192_Q	195_T	0.984	1.00
177_S	180_K	0.980	1.00
103_N	107_Q	0.978	1.00
195_T	235_F	0.975	1.00
165_L	176_P	0.966	1.00
239_T	242_N	0.965	1.00
229_I	233_K	0.963	1.00
147_V	172_L	0.962	1.00
205_M	216_V	0.957	1.00
123_F	127_S	0.956	1.00
152_C	193_I	0.954	1.00
149_D	153_R	0.946	1.00
203_V	232_F	0.945	1.00
192_Q	196_E	0.945	1.00
183_L	190_Y	0.945	1.00
161_H	167_I	0.940	1.00
91_H	94_T	0.938	1.00
162_Y	223_S	0.933	1.00
163_W	168_V	0.921	1.00
160_Q	201_Y	0.917	1.00
18_V	51_N	0.910	1.00
148_R	182_K	0.907	1.00
162_Y	167_I	0.907	1.00
227_Y	230_S	0.899	1.00
154_I	168_V	0.898	1.00
150_S	171_S	0.892	1.00
233_K	239_T	0.887	1.00
152_C	183_L	0.884	1.00
158_D	171_S	0.882	1.00
150_S	172_L	0.880	1.00
198_R	220_C	0.880	1.00
124_T	127_S	0.879	1.00
13_L	18_V	0.877	1.00
167_I	170_S	0.876	1.00
117_L	121_L	0.871	1.00
149_D	152_C	0.870	1.00
99_R	102_A	0.869	1.00
150_S	153_R	0.868	1.00
148_R	186_E	0.867	1.00
9_C	57_H	0.865	1.00
191_S	227_Y	0.864	1.00
242_N	246_K	0.862	1.00
236_Y	243_Y	0.862	1.00
206_L	216_V	0.859	1.00
22_V	26_A	0.858	1.00
172_L	179_L	0.856	1.00
168_V	171_S	0.854	1.00
117_L	124_T	0.851	1.00
18_V	30_L	0.851	1.00
87_V	90_C	0.846	1.00
96_E	100_L	0.841	1.00
206_L	244_L	0.838	1.00
192_Q	235_F	0.837	1.00
21_S	24_N	0.835	1.00
23_N	26_A	0.829	1.00
159_I	194_V	0.828	1.00
148_R	151_V	0.827	1.00
199_M	231_V	0.824	1.00
116_E	119_R	0.824	1.00
93_R	96_E	0.822	1.00
95_P	99_R	0.821	1.00
148_R	152_C	0.815	1.00
104_H	107_Q	0.811	1.00
86_P	89_A	0.803	1.00
105_S	108_Q	0.802	1.00
193_I	197_C	0.801	1.00
191_S	194_V	0.799	1.00
174_L	182_K	0.794	1.00
116_E	120_A	0.784	1.00
180_K	184_K	0.784	1.00
102_A	106_K	0.780	1.00
86_P	90_C	0.773	1.00
207_L	243_Y	0.771	1.00
159_I	220_C	0.771	1.00
60_R	64_N	0.766	1.00
218_Q	223_S	0.764	1.00
147_V	150_S	0.762	1.00
100_L	103_N	0.759	1.00
168_V	179_L	0.755	1.00
238_L	243_Y	0.751	1.00
38_F	44_V	0.747	1.00
181_K	185_N	0.745	1.00
199_M	228_F	0.744	1.00
100_L	104_H	0.740	1.00
225_T	228_F	0.739	1.00
158_D	167_I	0.739	1.00
223_S	227_Y	0.735	1.00
21_S	46_E	0.732	1.00
228_F	232_F	0.730	1.00
94_T	100_L	0.730	1.00
159_I	163_W	0.727	1.00
18_V	29_T	0.719	1.00
20_V	36_A	0.717	1.00
217_A	225_T	0.715	1.00
202_A	205_M	0.711	1.00
163_W	167_I	0.710	1.00
95_P	98_F	0.709	1.00
94_T	98_F	0.708	1.00
180_K	191_S	0.701	1.00
145_S	149_D	0.698	1.00
12_I	35_L	0.696	1.00
144_R	147_V	0.695	1.00
159_I	198_R	0.694	1.00
180_K	189_S	0.692	1.00
155_I	193_I	0.692	1.00
209_D	216_V	0.691	1.00
151_V	183_L	0.683	1.00
151_V	190_Y	0.682	1.00
184_K	189_S	0.681	1.00
96_E	103_N	0.681	1.00
224_S	227_Y	0.680	1.00
188_T	193_I	0.679	1.00
151_V	154_I	0.677	1.00
117_L	120_A	0.676	1.00
11_V	55_I	0.673	1.00
30_L	36_A	0.671	1.00
92_S	95_P	0.670	1.00
51_N	55_I	0.667	1.00
195_T	227_Y	0.666	1.00
144_R	185_N	0.663	1.00
94_T	108_Q	0.662	1.00
11_V	36_A	0.661	1.00
84_A	87_V	0.657	1.00
62_I	65_D	0.657	1.00
114_E	118_T	0.653	1.00
233_K	242_N	0.651	1.00
103_N	121_L	0.651	1.00
11_V	53_V	0.649	1.00
15_E	50_L	0.647	1.00
115_A	119_R	0.646	1.00
145_S	182_K	0.646	1.00
11_V	38_F	0.643	1.00
226_S	230_S	0.641	1.00
212_N	216_V	0.633	1.00
199_M	222_Y	0.631	1.00
200_R	236_Y	0.630	1.00
154_I	167_I	0.629	1.00
151_V	155_I	0.629	1.00
85_T	89_A	0.628	1.00
169_A	172_L	0.625	1.00
94_T	97_V	0.625	1.00
103_N	106_K	0.625	1.00
202_A	216_V	0.622	1.00
91_H	95_P	0.618	1.00
11_V	20_V	0.611	1.00
200_R	235_F	0.609	1.00
118_T	122_L	0.609	1.00
101_A	104_H	0.606	1.00
232_F	236_Y	0.605	1.00
144_R	186_E	0.603	1.00
226_S	239_T	0.602	1.00
64_N	68_L	0.602	1.00
13_L	53_V	0.601	1.00
13_L	30_L	0.599	1.00
232_F	238_L	0.596	1.00
98_F	101_A	0.596	1.00
203_V	238_L	0.594	1.00
170_S	173_C	0.592	1.00
149_D	186_E	0.591	1.00
96_E	128_N	0.587	1.00
105_S	109_P	0.585	1.00
216_V	244_L	0.579	1.00
168_V	172_L	0.578	1.00
204_Q	207_L	0.577	1.00
146_S	186_E	0.576	1.00
165_L	191_S	0.574	1.00
24_N	27_T	0.573	1.00
163_W	198_R	0.573	1.00
121_L	125_V	0.572	1.00
224_S	234_A	0.568	1.00
195_T	199_M	0.567	1.00
231_V	236_Y	0.567	1.00
17_E	49_T	0.566	1.00
144_R	178_L	0.565	1.00
163_W	194_V	0.561	1.00
60_R	63_I	0.559	1.00
117_L	127_S	0.558	1.00
156_Q	201_Y	0.557	1.00
192_Q	234_A	0.554	1.00
97_V	100_L	0.553	1.00
210_N	216_V	0.551	1.00
102_A	105_S	0.550	1.00
213_I	241_L	0.550	1.00
222_Y	228_F	0.548	1.00
148_R	179_L	0.548	1.00
20_V	44_V	0.545	1.00
155_I	163_W	0.545	1.00
142_I	145_S	0.542	1.00
128_N	131_E	0.541	1.00
153_R	156_Q	0.541	1.00
112_P	115_A	0.540	1.00
116_E	123_F	0.539	1.00
9_C	38_F	0.539	1.00
148_R	172_L	0.537	1.00
228_F	240_P	0.537	1.00
151_V	182_K	0.533	1.00
10_V	37_A	0.533	1.00
116_E	127_S	0.531	1.00
222_Y	227_Y	0.530	1.00
97_V	101_A	0.529	1.00
52_H	55_I	0.528	1.00
13_L	51_N	0.527	1.00
100_L	121_L	0.525	1.00
99_R	106_K	0.525	1.00
206_L	243_Y	0.520	1.00
117_L	131_E	0.518	1.00
22_V	38_F	0.517	1.00
90_C	93_R	0.516	1.00
201_Y	219_L	0.515	1.00
13_L	34_Y	0.512	1.00
54_L	57_H	0.512	1.00
200_R	204_Q	0.509	1.00
165_L	177_S	0.506	1.00
114_E	117_L	0.505	1.00
65_D	69_F	0.503	1.00
117_L	128_N	0.502	1.00
61_N	64_N	0.502	1.00
121_L	128_N	0.501	1.00
107_Q	110_S	0.501	1.00
23_N	43_N	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
3gbgA	1	0.9289	100	0.213	Contact Map
1bl0A	1	0.4348	100	0.445	Contact Map
3oouA	1	0.4111	100	0.447	Contact Map
3mklA	1	0.4387	100	0.447	Contact Map
3oioA	1	0.4387	100	0.451	Contact Map
3mn2A	1	0.415	99.9	0.456	Contact Map
2k9sA	1	0.415	99.9	0.462	Contact Map
3w6vA	1	0.4308	99.9	0.468	Contact Map
3lsgA	2	0.3992	99.9	0.472	Contact Map
1d5yA	1	0.4348	99.9	0.479	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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