MENH - ECOLI - GREMLIN Contacts

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MENH - 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase

UniProt:	P37355	Sequences: MILHAQAKHGKPGLPWLVFLHGFSGDCHEWQEVGEAFADYSRLYVDLPGHGGSAAISVDGFDDVTDLLRKTLVSYNILDFWLVGYSLGGRVAMMAACQGLAGLCGVIVEGGHPGLQNAEQRAERQRSDRQWVQRFLTEPLTAVFADWYQQPVFASLNDDQRRELVALRSNNNGATLAAMLEATSLAVQPDLRANLSARTFAFYYLCGERDSKFRALAAELAADCHVIPRAGHNAHRENPAGVIASLAQILRF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12438
Length:	252 (236)
Sequences:	57503 (47231)
Seq/√Len:	3074.5

ECOLI - MENH RUTD YBFF MHPC BIOH PLDB YCJY YFHR
BACSU - MENH YUGF RSBQ YDJP YFHM YISY NAP YBFK YVAM YCGS PLBAC YBDG YRAK YBAC YCLE EST YQJL YQKD
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0
SULSO - PIP Q7LXY9 Q97WG0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
81_W	105_G	4.754	1.00
48_P	67_L	4.711	1.00
33_V	243_I	3.573	1.00
208_E	228_P	2.956	1.00
110_G	210_D	2.943	1.00
69_R	95_A	2.901	1.00
238_N	241_G	2.834	1.00
81_W	104_C	2.664	1.00
109_E	242_V	2.582	1.00
225_H	245_S	2.556	1.00
79_D	104_C	2.538	1.00
203_Y	249_I	2.433	1.00
89_G	111_G	2.385	1.00
72_L	80_F	2.381	1.00
227_I	245_S	2.234	1.00
73_V	102_G	2.225	1.00
95_A	99_G	2.222	1.00
39_D	247_A	2.101	1.00
69_R	99_G	2.083	1.00
66_D	98_Q	2.045	1.00
81_W	107_I	2.027	1.00
82_L	92_A	2.012	1.00
208_E	226_V	2.003	1.00
230_A	238_N	1.999	1.00
69_R	102_G	1.962	1.00
10_G	41_S	1.922	1.00
16_W	43_L	1.871	1.00
69_R	73_V	1.869	1.00
92_A	106_V	1.844	1.00
21_H	50_H	1.804	1.00
36_A	243_I	1.782	1.00
45_V	68_L	1.781	1.00
40_Y	81_W	1.759	1.00
15_P	81_W	1.748	1.00
96_A	106_V	1.737	1.00
107_I	246_L	1.725	1.00
94_M	98_Q	1.696	1.00
68_L	95_A	1.678	1.00
21_H	47_L	1.663	1.00
16_W	77_I	1.643	1.00
203_Y	225_H	1.633	1.00
62_D	98_Q	1.583	1.00
16_W	41_S	1.580	1.00
47_L	91_V	1.575	1.00
20_L	92_A	1.573	1.00
244_A	248_Q	1.563	1.00
99_G	102_G	1.560	1.00
245_S	248_Q	1.528	1.00
15_P	104_C	1.526	1.00
43_L	71_T	1.499	1.00
20_L	47_L	1.492	1.00
95_A	103_L	1.492	1.00
25_G	29_E	1.482	1.00
194_N	197_A	1.468	1.00
34_G	44_Y	1.439	1.00
19_F	83_V	1.436	1.00
60_G	63_D	1.422	1.00
19_F	42_R	1.415	1.00
27_C	52_G	1.408	1.00
65_T	94_M	1.399	1.00
108_V	111_G	1.395	1.00
27_C	46_D	1.350	1.00
24_S	50_H	1.338	1.00
77_I	80_F	1.328	1.00
157_N	160_Q	1.322	1.00
45_V	71_T	1.321	1.00
46_D	51_G	1.320	1.00
36_A	247_A	1.318	1.00
95_A	102_G	1.312	1.00
20_L	68_L	1.303	1.00
208_E	229_R	1.300	1.00
73_V	99_G	1.299	1.00
85_Y	235_H	1.297	1.00
11_K	14_L	1.295	1.00
24_S	86_S	1.291	1.00
18_V	72_L	1.285	1.00
227_I	230_A	1.282	1.00
241_G	245_S	1.279	1.00
72_L	77_I	1.263	1.00
206_C	217_A	1.250	1.00
71_T	75_Y	1.229	1.00
94_M	97_C	1.221	1.00
107_I	203_Y	1.218	1.00
93_M	108_V	1.190	1.00
242_V	246_L	1.185	1.00
180_L	183_T	1.176	1.00
72_L	95_A	1.167	1.00
80_F	103_L	1.159	1.00
14_L	41_S	1.157	1.00
36_A	240_A	1.147	1.00
97_C	194_N	1.123	1.00
83_V	109_E	1.123	1.00
241_G	244_A	1.119	1.00
15_P	40_Y	1.109	1.00
205_L	245_S	1.107	1.00
205_L	227_I	1.102	1.00
38_A	42_R	1.091	1.00
10_G	14_L	1.091	1.00
177_A	181_E	1.086	1.00
230_A	237_E	1.084	1.00
16_W	40_Y	1.078	1.00
27_C	44_Y	1.076	1.00
230_A	234_A	1.067	1.00
43_L	75_Y	1.054	1.00
85_Y	233_N	1.046	1.00
29_E	235_H	1.044	1.00
80_F	102_G	1.043	1.00
179_M	182_A	1.038	1.00
17_L	40_Y	1.036	1.00
158_D	162_R	1.034	1.00
86_S	232_H	1.030	1.00
65_T	91_V	1.013	1.00
106_V	202_F	1.004	1.00
223_D	245_S	1.003	1.00
206_C	224_C	1.002	1.00
240_A	244_A	0.999	1.00
18_V	68_L	0.998	1.00
20_L	82_L	0.998	1.00
227_I	241_G	0.996	1.00
83_V	246_L	0.996	1.00
32_E	35_E	0.984	1.00
227_I	238_N	0.981	1.00
136_L	139_P	0.980	1.00
31_Q	44_Y	0.978	1.00
172_N	175_T	0.976	1.00
18_V	80_F	0.975	1.00
69_R	98_Q	0.965	1.00
17_L	83_V	0.964	1.00
206_C	226_V	0.962	1.00
15_P	105_G	0.960	1.00
179_M	183_T	0.950	1.00
62_D	94_M	0.941	1.00
96_A	103_L	0.934	1.00
203_Y	223_D	0.929	1.00
15_P	79_D	0.923	1.00
162_R	166_A	0.922	1.00
231_G	237_E	0.918	1.00
174_A	178_A	0.917	1.00
94_M	194_N	0.916	1.00
218_A	221_A	0.914	1.00
22_G	86_S	0.911	1.00
109_E	235_H	0.911	1.00
204_Y	222_A	0.907	1.00
139_P	142_A	0.904	1.00
27_C	45_V	0.902	1.00
65_T	98_Q	0.899	1.00
20_L	45_V	0.898	1.00
17_L	42_R	0.896	1.00
178_A	181_E	0.896	1.00
69_R	72_L	0.895	1.00
82_L	95_A	0.888	1.00
84_G	92_A	0.888	1.00
225_H	248_Q	0.888	1.00
176_L	179_M	0.886	1.00
34_G	42_R	0.874	1.00
12_P	41_S	0.873	1.00
162_R	165_V	0.872	1.00
84_G	89_G	0.868	1.00
47_L	87_L	0.865	1.00
76_N	79_D	0.861	1.00
21_H	45_V	0.858	1.00
35_E	38_A	0.852	1.00
218_A	226_V	0.845	1.00
175_T	178_A	0.838	1.00
163_E	167_L	0.832	1.00
129_R	133_Q	0.830	1.00
225_H	241_G	0.824	1.00
105_G	201_A	0.823	1.00
16_W	80_F	0.822	1.00
141_T	145_A	0.819	1.00
70_K	74_S	0.816	1.00
218_A	224_C	0.814	1.00
178_A	182_A	0.813	1.00
24_S	87_L	0.813	1.00
229_R	238_N	0.812	1.00
64_V	87_L	0.811	1.00
215_A	218_A	0.810	1.00
41_S	77_I	0.809	1.00
209_R	229_R	0.807	1.00
217_A	224_C	0.807	1.00
70_K	73_V	0.804	1.00
83_V	107_I	0.804	1.00
66_D	70_K	0.801	1.00
103_L	200_F	0.798	1.00
28_H	31_Q	0.790	1.00
205_L	242_V	0.790	1.00
47_L	50_H	0.790	1.00
110_G	234_A	0.789	1.00
43_L	77_I	0.788	1.00
63_D	66_D	0.781	1.00
109_E	234_A	0.780	1.00
239_P	243_I	0.779	1.00
110_G	206_C	0.777	1.00
47_L	64_V	0.770	1.00
46_D	52_G	0.768	1.00
176_L	180_L	0.768	1.00
66_D	69_R	0.764	1.00
18_V	82_L	0.758	1.00
48_P	64_V	0.756	1.00
47_L	68_L	0.751	1.00
221_A	224_C	0.751	1.00
93_M	111_G	0.748	1.00
40_Y	247_A	0.747	1.00
174_A	179_M	0.745	1.00
207_G	234_A	0.744	1.00
66_D	99_G	0.744	1.00
23_F	87_L	0.740	1.00
82_L	103_L	0.738	1.00
34_G	38_A	0.737	1.00
175_T	179_M	0.736	1.00
223_D	248_Q	0.728	1.00
96_A	200_F	0.728	1.00
10_G	13_G	0.726	1.00
108_V	204_Y	0.723	1.00
105_G	249_I	0.721	1.00
198_R	202_F	0.721	1.00
13_G	41_S	0.720	1.00
142_A	145_A	0.718	1.00
17_L	37_F	0.716	1.00
39_D	42_R	0.714	1.00
174_A	177_A	0.714	1.00
204_Y	224_C	0.712	1.00
126_R	129_R	0.709	1.00
65_T	95_A	0.709	1.00
85_Y	110_G	0.706	1.00
84_G	88_G	0.706	1.00
33_V	36_A	0.705	1.00
30_W	34_G	0.704	1.00
11_K	41_S	0.702	1.00
71_T	74_S	0.699	1.00
17_L	81_W	0.699	1.00
243_I	247_A	0.695	1.00
19_F	30_W	0.694	1.00
78_L	102_G	0.692	1.00
72_L	102_G	0.685	1.00
30_W	33_V	0.683	1.00
93_M	113_P	0.670	1.00
96_A	198_R	0.669	1.00
19_F	37_F	0.668	1.00
80_F	104_C	0.666	1.00
89_G	108_V	0.664	1.00
86_S	233_N	0.663	1.00
110_G	207_G	0.662	1.00
19_F	44_Y	0.658	1.00
33_V	242_V	0.656	1.00
172_N	176_L	0.653	1.00
204_Y	221_A	0.651	1.00
46_D	53_S	0.651	1.00
177_A	180_L	0.649	1.00
97_C	197_A	0.648	1.00
80_F	95_A	0.648	1.00
151_P	154_A	0.644	1.00
85_Y	109_E	0.643	1.00
62_D	66_D	0.642	1.00
48_P	55_A	0.640	1.00
61_F	94_M	0.633	1.00
167_L	170_N	0.631	1.00
205_L	225_H	0.631	1.00
216_L	219_E	0.631	1.00
29_E	85_Y	0.625	1.00
228_P	241_G	0.625	1.00
172_N	180_L	0.622	1.00
90_R	112_H	0.619	1.00
172_N	178_A	0.618	1.00
244_A	247_A	0.618	1.00
130_Q	134_R	0.617	1.00
190_D	194_N	0.614	1.00
159_D	162_R	0.614	1.00
143_V	147_W	0.612	1.00
48_P	56_I	0.612	1.00
98_Q	194_N	0.611	1.00
191_L	194_N	0.607	1.00
61_F	91_V	0.601	1.00
204_Y	217_A	0.601	1.00
136_L	140_L	0.600	1.00
65_T	69_R	0.599	1.00
33_V	235_H	0.597	1.00
164_L	167_L	0.595	1.00
163_E	166_A	0.595	1.00
23_F	50_H	0.594	1.00
161_R	165_V	0.594	1.00
128_D	131_W	0.594	1.00
64_V	91_V	0.589	1.00
79_D	102_G	0.589	1.00
26_D	50_H	0.588	1.00
131_W	135_F	0.586	1.00
140_L	144_F	0.586	1.00
147_W	150_Q	0.586	1.00
209_R	230_A	0.585	1.00
234_A	242_V	0.585	1.00
20_L	91_V	0.585	1.00
128_D	132_V	0.584	1.00
140_L	143_V	0.582	1.00
87_L	91_V	0.580	1.00
217_A	221_A	0.580	1.00
136_L	141_T	0.577	1.00
105_G	203_Y	0.572	1.00
25_G	233_N	0.570	1.00
37_F	42_R	0.570	1.00
129_R	135_F	0.570	1.00
138_E	142_A	0.569	1.00
215_A	219_E	0.567	1.00
31_Q	35_E	0.567	1.00
109_E	205_L	0.565	1.00
30_W	83_V	0.563	1.00
190_D	193_A	0.561	1.00
151_P	155_S	0.558	1.00
144_F	148_Y	0.555	1.00
104_C	107_I	0.555	1.00
235_H	242_V	0.555	1.00
128_D	135_F	0.553	1.00
173_G	180_L	0.550	1.00
107_I	205_L	0.550	1.00
176_L	183_T	0.549	1.00
28_H	52_G	0.547	1.00
125_Q	131_W	0.542	1.00
125_Q	128_D	0.540	1.00
85_Y	234_A	0.539	1.00
148_Y	151_P	0.539	1.00
79_D	101_A	0.538	1.00
176_L	181_E	0.537	1.00
165_V	169_S	0.536	1.00
29_E	236_R	0.536	1.00
166_A	169_S	0.535	1.00
14_L	40_Y	0.533	1.00
21_H	30_W	0.531	1.00
25_G	85_Y	0.530	1.00
160_Q	163_E	0.525	1.00
161_R	164_L	0.521	1.00
68_L	91_V	0.520	1.00
209_R	228_P	0.520	1.00
123_E	126_R	0.517	1.00
130_Q	133_Q	0.517	1.00
143_V	146_D	0.516	1.00
159_D	163_E	0.514	1.00
173_G	178_A	0.513	1.00
149_Q	152_V	0.512	1.00
139_P	148_Y	0.512	1.00
150_Q	153_F	0.512	1.00
89_G	110_G	0.511	1.00
23_F	86_S	0.511	1.00
175_T	181_E	0.510	1.00
125_Q	129_R	0.509	1.00
142_A	146_D	0.508	1.00
124_R	128_D	0.507	1.00
243_I	248_Q	0.507	1.00
193_A	196_S	0.507	1.00
173_G	176_L	0.504	1.00
202_F	222_A	0.503	1.00
63_D	67_L	0.502	1.00
108_V	202_F	0.502	1.00
152_V	155_S	0.501	1.00
130_Q	135_F	0.500	1.00
176_L	182_A	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
4mydA	1	1	100	0.15	Contact Map
1ehyA	1	0.9484	100	0.206	Contact Map
1r3dA	1	0.9722	100	0.216	Contact Map
2xmzA	1	0.996	100	0.218	Contact Map
4inzA	1	0.9881	100	0.227	Contact Map
3bf7A	1	0.9444	100	0.234	Contact Map
3om8A	4	0.9683	100	0.239	Contact Map
3oosA	1	0.9603	100	0.244	Contact Map
5bovA	2	0.996	100	0.248	Contact Map
2xuaA	2	0.9683	100	0.25	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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