MENA - ECOLI - GREMLIN Contacts

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MENA - 1,4-dihydroxy-2-naphthoate octaprenyltransferase

UniProt:	P32166	Sequences: MTEQQISRTQAWLESLRPKTLPLAFAAIIVGTALAWWQGHFDPLVALLALITAGLLQILSNLANDYGDAVKGSDKPDRIGPLRGMQKGVITQQEMKRALIITVVLICLSGLALVAVACHTLADFVGFLILGGLSIIAAITYTVGNRPYGYIGLGDISVLVFFGWLSVMGSWYLQAHTLIPALILPATACGLLATAVLNINNLRDINSDRENGKNTLVVRLGEVNARRYHACLLMGSLVCLALFNLFSLHSLWGWLFLLAAPLLVKQARYVMREMDPVAMRPMLERTVKGALLTNLLFVLGIFLSQWAA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11880
Length:	308 (277)
Sequences:	9210 (6558)
Seq/√Len:	394.0

ECOLI - MENA UBIA CYOE
BACSU - MENA COXX1 COXX2
HALSA - Q9HQN6 LYEL DGGGP COXX
SULSO - COXX Q980Z2 DGGGP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
66_Y	92_Q	3.760	1.00
69_A	92_Q	3.696	1.00
59_L	103_V	3.296	1.00
223_V	227_R	3.111	1.00
93_Q	97_R	3.004	1.00
66_Y	96_K	2.973	1.00
91_T	94_E	2.879	1.00
11_A	89_V	2.827	1.00
78_R	81_P	2.525	1.00
205_I	209_R	2.366	1.00
206_N	209_R	2.320	1.00
32_T	46_A	2.220	1.00
14_E	89_V	2.193	1.00
268_R	272_R	2.135	1.00
265_K	269_Y	2.118	1.00
62_L	102_T	2.064	1.00
21_L	54_G	2.034	1.00
12_W	94_E	2.032	1.00
275_D	278_A	2.019	1.00
100_I	104_V	2.009	1.00
114_V	117_A	1.970	1.00
48_L	109_S	1.970	1.00
71_K	213_K	1.966	1.00
224_N	227_R	1.947	1.00
67_G	143_V	1.906	1.00
55_L	105_L	1.905	1.00
10_Q	14_E	1.896	1.00
56_L	106_I	1.865	1.00
115_A	118_C	1.837	1.00
264_V	268_R	1.807	1.00
290_A	294_N	1.782	1.00
227_R	231_C	1.767	1.00
220_L	224_N	1.763	1.00
286_T	290_A	1.761	1.00
97_R	101_I	1.753	1.00
90_I	95_M	1.728	1.00
114_V	118_C	1.710	1.00
209_R	218_V	1.705	1.00
48_L	112_A	1.660	1.00
130_L	134_S	1.648	1.00
62_L	98_A	1.640	1.00
66_Y	95_M	1.638	1.00
179_I	182_L	1.616	1.00
29_I	50_L	1.615	1.00
42_D	45_V	1.615	1.00
287_V	290_A	1.605	1.00
217_V	225_A	1.596	1.00
12_W	16_L	1.571	1.00
13_L	16_L	1.567	1.00
283_L	287_V	1.553	1.00
264_V	267_A	1.550	1.00
284_E	288_K	1.547	1.00
58_I	102_T	1.546	1.00
205_I	222_E	1.540	1.00
152_G	219_R	1.521	1.00
55_L	102_T	1.484	1.00
12_W	98_A	1.479	1.00
237_L	259_A	1.460	1.00
55_L	106_I	1.441	1.00
23_L	196_V	1.430	1.00
266_Q	269_Y	1.419	1.00
73_S	86_Q	1.418	1.00
285_R	289_G	1.417	1.00
92_Q	96_K	1.408	1.00
111_L	116_V	1.372	1.00
63_A	99_L	1.370	1.00
16_L	62_L	1.347	1.00
275_D	279_M	1.344	1.00
168_M	186_A	1.344	1.00
62_L	99_L	1.341	1.00
224_N	228_Y	1.329	1.00
234_M	238_V	1.321	1.00
267_A	271_M	1.320	1.00
279_M	283_L	1.308	1.00
276_P	279_M	1.307	1.00
96_K	100_I	1.306	1.00
16_L	102_T	1.303	1.00
205_I	218_V	1.292	1.00
289_G	293_T	1.289	1.00
263_L	266_Q	1.283	1.00
262_L	269_Y	1.282	1.00
74_D	211_N	1.277	1.00
93_Q	96_K	1.270	1.00
262_L	265_K	1.269	1.00
171_W	182_L	1.254	1.00
69_A	73_S	1.251	1.00
148_Y	151_I	1.249	1.00
283_L	290_A	1.245	1.00
108_L	112_A	1.233	1.00
52_T	109_S	1.229	1.00
16_L	58_I	1.227	1.00
13_L	18_P	1.226	1.00
250_S	253_G	1.226	1.00
98_A	102_T	1.223	1.00
137_A	161_F	1.222	1.00
285_R	288_K	1.218	1.00
9_T	13_L	1.215	1.00
214_N	219_R	1.214	1.00
283_L	286_T	1.207	1.00
261_P	265_K	1.205	1.00
34_L	171_W	1.201	1.00
47_L	51_I	1.201	1.00
129_I	133_L	1.199	1.00
250_S	254_W	1.196	1.00
68_D	150_Y	1.188	1.00
278_A	282_M	1.184	1.00
15_S	95_M	1.183	1.00
171_W	175_A	1.181	1.00
188_A	239_C	1.177	1.00
281_P	285_R	1.176	1.00
71_K	150_Y	1.167	1.00
263_L	267_A	1.157	1.00
195_A	232_L	1.157	1.00
66_Y	99_L	1.153	1.00
28_I	53_A	1.149	1.00
290_A	293_T	1.142	1.00
149_G	213_K	1.136	1.00
278_A	281_P	1.132	1.00
222_E	226_R	1.129	1.00
288_K	292_L	1.125	1.00
140_T	157_S	1.119	1.00
178_L	183_I	1.117	1.00
16_L	98_A	1.115	1.00
280_R	283_L	1.107	1.00
191_L	232_L	1.103	1.00
286_T	294_N	1.102	1.00
287_V	291_L	1.100	1.00
155_D	215_T	1.092	1.00
252_W	256_F	1.091	1.00
32_T	174_Q	1.090	1.00
244_N	254_W	1.089	1.00
256_F	300_G	1.081	1.00
183_I	187_T	1.080	1.00
131_G	134_S	1.079	1.00
75_K	207_S	1.076	1.00
268_R	271_M	1.075	1.00
107_C	111_L	1.072	1.00
41_F	46_A	1.070	1.00
285_R	290_A	1.069	1.00
35_A	171_W	1.064	1.00
223_V	226_R	1.063	1.00
202_L	225_A	1.058	1.00
148_Y	157_S	1.056	1.00
44_L	48_L	1.056	1.00
110_G	114_V	1.045	1.00
85_M	95_M	1.043	1.00
202_L	224_N	1.031	1.00
216_L	220_L	1.027	1.00
51_I	109_S	1.026	1.00
259_A	262_L	1.023	1.00
205_I	217_V	1.016	1.00
178_L	182_L	1.007	1.00
135_I	139_I	1.003	1.00
136_I	140_T	1.001	1.00
260_A	263_L	0.992	1.00
139_I	143_V	0.989	1.00
227_R	230_A	0.982	1.00
15_S	62_L	0.982	1.00
25_F	29_I	0.979	1.00
42_D	174_Q	0.977	1.00
198_N	228_Y	0.975	1.00
289_G	295_L	0.974	1.00
31_G	35_A	0.974	1.00
288_K	294_N	0.974	1.00
262_L	266_Q	0.967	1.00
28_I	49_A	0.963	1.00
111_L	115_A	0.960	1.00
94_E	97_R	0.955	1.00
243_F	252_W	0.952	1.00
293_T	296_L	0.950	1.00
109_S	113_L	0.948	1.00
206_N	210_E	0.948	1.00
62_L	95_M	0.942	1.00
204_D	208_D	0.940	1.00
267_A	270_V	0.938	1.00
201_N	217_V	0.938	1.00
130_L	133_L	0.930	1.00
295_L	298_V	0.928	1.00
289_G	294_N	0.922	1.00
70_V	74_D	0.918	1.00
284_E	287_V	0.916	1.00
266_Q	270_V	0.913	1.00
163_G	193_A	0.908	1.00
165_L	169_G	0.908	1.00
48_L	113_L	0.906	1.00
44_L	47_L	0.904	1.00
62_L	90_I	0.903	1.00
140_T	148_Y	0.901	1.00
226_R	230_A	0.900	1.00
130_L	169_G	0.896	1.00
132_G	136_I	0.896	1.00
69_A	85_M	0.895	1.00
187_T	239_C	0.894	1.00
261_P	268_R	0.892	1.00
230_A	234_M	0.889	1.00
187_T	191_L	0.886	1.00
221_G	225_A	0.884	1.00
110_G	131_G	0.884	1.00
60_S	138_A	0.884	1.00
284_E	290_A	0.882	1.00
25_F	50_L	0.881	1.00
84_G	88_G	0.875	1.00
115_A	129_I	0.874	1.00
43_P	47_L	0.871	1.00
171_W	179_I	0.866	1.00
277_V	281_P	0.863	1.00
291_L	295_L	0.858	1.00
24_A	57_Q	0.845	1.00
90_I	98_A	0.842	1.00
158_V	197_L	0.840	1.00
293_T	298_V	0.840	1.00
166_S	169_G	0.834	1.00
164_W	186_A	0.832	1.00
36_W	41_F	0.828	1.00
161_F	186_A	0.826	1.00
279_M	282_M	0.826	1.00
270_V	273_E	0.824	1.00
206_N	222_E	0.816	1.00
68_D	71_K	0.809	1.00
293_T	297_F	0.809	1.00
265_K	268_R	0.802	1.00
288_K	291_L	0.801	1.00
26_A	294_N	0.798	1.00
33_A	36_W	0.797	1.00
56_L	130_L	0.797	1.00
114_V	128_L	0.791	1.00
142_T	150_Y	0.789	1.00
202_L	222_E	0.784	1.00
259_A	266_Q	0.780	1.00
94_E	98_A	0.779	1.00
163_G	190_G	0.776	1.00
177_T	181_A	0.775	1.00
162_F	193_A	0.775	1.00
30_V	185_P	0.772	1.00
180_P	183_I	0.770	1.00
103_V	135_I	0.769	1.00
70_V	92_Q	0.762	1.00
51_I	55_L	0.762	1.00
283_L	289_G	0.761	1.00
68_D	213_K	0.760	1.00
283_L	294_N	0.755	1.00
71_K	211_N	0.755	1.00
55_L	109_S	0.755	1.00
104_V	108_L	0.750	1.00
253_G	256_F	0.750	1.00
112_A	116_V	0.748	1.00
282_M	287_V	0.746	1.00
249_H	252_W	0.745	1.00
163_G	189_C	0.744	1.00
236_S	240_L	0.741	1.00
101_I	105_L	0.741	1.00
39_G	42_D	0.739	1.00
260_A	264_V	0.738	1.00
195_A	233_L	0.736	1.00
179_I	183_I	0.735	1.00
255_L	259_A	0.734	1.00
194_T	232_L	0.733	1.00
189_C	193_A	0.733	1.00
149_G	155_D	0.733	1.00
80_G	83_R	0.733	1.00
86_Q	95_M	0.732	1.00
266_Q	271_M	0.729	1.00
264_V	272_R	0.728	1.00
68_D	142_T	0.727	1.00
66_Y	85_M	0.727	1.00
202_L	226_R	0.723	1.00
148_Y	152_G	0.722	1.00
59_L	102_T	0.719	1.00
63_A	139_I	0.718	1.00
263_L	268_R	0.715	1.00
33_A	298_V	0.714	1.00
253_G	257_L	0.711	1.00
67_G	142_T	0.711	1.00
292_L	296_L	0.709	1.00
63_A	67_G	0.709	1.00
229_H	286_T	0.708	1.00
160_V	190_G	0.706	1.00
235_G	239_C	0.706	1.00
257_L	261_P	0.704	1.00
85_M	90_I	0.701	1.00
41_F	174_Q	0.699	1.00
159_L	164_W	0.699	1.00
96_K	99_L	0.698	1.00
84_G	89_V	0.694	1.00
40_H	44_L	0.694	1.00
282_M	286_T	0.693	1.00
240_L	256_F	0.687	0.99
262_L	270_V	0.685	0.99
281_P	284_E	0.684	0.99
29_I	46_A	0.682	0.99
167_V	170_S	0.680	0.99
153_L	220_L	0.680	0.99
192_L	236_S	0.678	0.99
155_D	201_N	0.678	0.99
168_M	182_L	0.675	0.99
90_I	94_E	0.672	0.99
287_V	293_T	0.670	0.99
83_R	86_Q	0.667	0.99
57_Q	61_N	0.665	0.99
197_L	200_N	0.665	0.99
244_N	253_G	0.664	0.99
137_A	160_V	0.663	0.99
32_T	41_F	0.662	0.99
137_A	157_S	0.661	0.99
45_V	113_L	0.659	0.99
23_L	27_A	0.658	0.99
99_L	103_V	0.657	0.99
258_L	261_P	0.656	0.99
232_L	235_G	0.654	0.99
78_R	82_L	0.651	0.99
230_A	271_M	0.650	0.99
103_V	106_I	0.649	0.99
105_L	109_S	0.649	0.99
208_D	215_T	0.647	0.99
82_L	89_V	0.647	0.99
88_G	94_E	0.647	0.99
15_S	90_I	0.646	0.99
267_A	272_R	0.644	0.99
294_N	298_V	0.644	0.99
296_L	300_G	0.641	0.99
258_L	262_L	0.640	0.99
83_R	88_G	0.639	0.99
58_I	62_L	0.639	0.99
131_G	135_I	0.638	0.99
108_L	111_L	0.638	0.99
263_L	270_V	0.638	0.99
128_L	132_G	0.636	0.99
259_A	268_R	0.635	0.99
290_A	295_L	0.634	0.99
113_L	117_A	0.633	0.99
198_N	225_A	0.633	0.99
244_N	251_L	0.633	0.99
52_T	110_G	0.628	0.99
231_C	235_G	0.628	0.99
276_P	280_R	0.625	0.99
132_G	135_I	0.622	0.99
32_T	49_A	0.622	0.99
118_C	128_L	0.621	0.99
243_F	253_G	0.612	0.99
264_V	271_M	0.611	0.99
241_A	245_L	0.610	0.99
287_V	294_N	0.610	0.99
44_L	112_A	0.609	0.99
282_M	290_A	0.608	0.99
58_I	98_A	0.607	0.99
59_L	99_L	0.607	0.99
196_V	200_N	0.605	0.99
36_W	174_Q	0.605	0.99
36_W	39_G	0.604	0.99
110_G	118_C	0.604	0.99
287_V	298_V	0.601	0.99
32_T	36_W	0.597	0.99
12_W	15_S	0.597	0.99
261_P	264_V	0.593	0.98
66_Y	69_A	0.589	0.98
201_N	215_T	0.589	0.98
14_E	19_K	0.585	0.98
71_K	74_D	0.582	0.98
226_R	229_H	0.581	0.98
199_I	270_V	0.581	0.98
59_L	139_I	0.579	0.98
30_V	189_C	0.577	0.98
168_M	178_L	0.576	0.98
24_A	27_A	0.576	0.98
291_L	294_N	0.574	0.98
129_I	132_G	0.573	0.98
51_I	105_L	0.570	0.98
110_G	115_A	0.570	0.98
21_L	50_L	0.569	0.98
64_N	142_T	0.568	0.98
181_A	246_F	0.567	0.98
282_M	285_R	0.567	0.98
229_H	233_L	0.565	0.98
292_L	298_V	0.564	0.98
171_W	177_T	0.561	0.98
10_Q	13_L	0.556	0.98
256_F	259_A	0.556	0.98
286_T	291_L	0.556	0.98
259_A	263_L	0.556	0.98
86_Q	89_V	0.554	0.98
153_L	219_R	0.553	0.98
214_N	218_V	0.552	0.98
230_A	267_A	0.549	0.98
200_N	203_R	0.546	0.97
117_A	172_Y	0.546	0.97
243_F	248_L	0.545	0.97
239_C	242_L	0.545	0.97
241_A	244_N	0.542	0.97
265_K	272_R	0.540	0.97
298_V	301_I	0.538	0.97
59_L	106_I	0.537	0.97
12_W	90_I	0.536	0.97
20_T	61_N	0.531	0.97
264_V	269_Y	0.530	0.97
56_L	138_A	0.529	0.97
159_L	187_T	0.526	0.97
70_V	73_S	0.525	0.97
283_L	291_L	0.524	0.97
49_A	53_A	0.523	0.97
220_L	228_Y	0.517	0.96
233_L	236_S	0.515	0.96
52_T	106_I	0.514	0.96
188_A	240_L	0.514	0.96
249_H	253_G	0.513	0.96
32_T	35_A	0.509	0.96
57_Q	200_N	0.509	0.96
290_A	296_L	0.508	0.96
33_A	302_F	0.507	0.96
287_V	292_L	0.507	0.96
292_L	295_L	0.505	0.96
269_Y	272_R	0.504	0.96
298_V	302_F	0.502	0.96
78_R	206_N	0.502	0.96
49_A	174_Q	0.501	0.96
20_T	57_Q	0.501	0.96
65_D	84_G	0.500	0.96

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
4od4A	1	0.8571	100	0.339	Contact Map
4tq3A	1	0.9026	100	0.352	Contact Map
2cfqA	1	0.8701	14.3	0.951	Contact Map
2xq2A	2	0.7435	14.3	0.951	Contact Map
4xnjA	1	0.5942	8.2	0.956	Contact Map
3ze3A	4	0.3377	7.2	0.957	Contact Map
3o7qA	1	0.8182	6.5	0.958	Contact Map
4n7wA	2	0.6494	6.1	0.959	Contact Map
2onkC	2	0.25	4	0.962	Contact Map
4uisB	1	0.1169	3.8	0.962	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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