FRE - ECOLI - GREMLIN Contacts

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FRE - NAD(P)H-flavin reductase

UniProt:	P0AEN1	Sequences: MTTLSCKVTSVEAITDTVYRVRIVPDAAFSFRAGQYLMVVMDERDKRPFSMASTPDEKGFIELHIGASEINLYAKAVMDRILKDHQIVVDIPHGEAWLRDDEERPMILIAGGTGFSYARSILLTALARNPNRDITIYWGGREEQHLYDLCELEALSLKHPGLQVVPVVEQPEAGWRGRTGTVLTAVLQDHGTLAEHDIYIAGRFEMAKIARDLFCSERNAREDRLFGDAFAFI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10334
Length:	233 (215)
Sequences:	20115 (14303)
Seq/√Len:	975.5

ECOLI - FRE PAAE HCR FENR YEAX HMP
BACSU - HMP PYRK CYSJ
HALSA - Q9HRZ4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
105_P	133_D	3.314	1.00
22_R	60_F	2.842	1.00
9_T	24_V	2.641	1.00
124_T	128_R	2.611	1.00
82_L	85_H	2.604	1.00
20_R	62_E	2.575	1.00
135_T	165_V	2.572	1.00
149_L	153_E	2.533	1.00
14_I	20_R	2.480	1.00
11_V	19_Y	2.422	1.00
22_R	62_E	2.317	1.00
123_L	151_E	2.310	1.00
7_K	24_V	2.288	1.00
7_K	86_Q	2.279	1.00
111_G	203_R	2.255	1.00
110_A	118_A	2.230	1.00
13_A	19_Y	2.132	1.00
38_M	48_P	2.123	1.00
10_S	22_R	2.121	1.00
40_V	88_V	2.099	1.00
107_I	198_I	2.098	1.00
135_T	163_Q	2.079	1.00
8_V	81_I	2.042	1.00
37_L	63_L	2.003	1.00
52_A	64_H	2.002	1.00
12_E	20_R	1.977	1.00
146_L	168_V	1.952	1.00
198_I	214_F	1.914	1.00
115_F	136_I	1.798	1.00
110_A	138_W	1.794	1.00
133_D	163_Q	1.771	1.00
143_E	171_P	1.696	1.00
140_G	146_L	1.665	1.00
184_T	187_L	1.633	1.00
10_S	83_K	1.625	1.00
21_V	77_V	1.623	1.00
154_A	158_K	1.622	1.00
142_E	145_H	1.596	1.00
198_I	220_A	1.580	1.00
105_P	135_T	1.524	1.00
24_V	60_F	1.518	1.00
139_G	206_M	1.513	1.00
109_I	206_M	1.499	1.00
211_R	215_C	1.498	1.00
23_I	63_L	1.496	1.00
184_T	188_Q	1.479	1.00
35_Q	94_G	1.475	1.00
37_L	89_V	1.474	1.00
200_I	210_A	1.456	1.00
105_P	196_H	1.447	1.00
104_R	197_D	1.447	1.00
9_T	60_F	1.441	1.00
104_R	195_E	1.429	1.00
67_A	75_K	1.426	1.00
111_G	206_M	1.404	1.00
16_D	144_Q	1.393	1.00
67_A	78_M	1.386	1.00
109_I	210_A	1.380	1.00
139_G	182_V	1.377	1.00
139_G	169_E	1.369	1.00
108_L	118_A	1.355	1.00
12_E	22_R	1.323	1.00
215_C	222_E	1.313	1.00
119_R	123_L	1.302	1.00
18_V	113_T	1.282	1.00
8_V	23_I	1.279	1.00
37_L	51_M	1.258	1.00
204_F	208_K	1.243	1.00
152_L	164_V	1.226	1.00
119_R	151_E	1.226	1.00
165_V	178_R	1.211	1.00
153_E	156_S	1.208	1.00
185_A	188_Q	1.202	1.00
38_M	90_D	1.199	1.00
64_H	147_Y	1.197	1.00
143_E	149_L	1.195	1.00
64_H	148_D	1.192	1.00
11_V	21_V	1.187	1.00
113_T	116_S	1.173	1.00
212_D	217_E	1.169	1.00
126_L	159_H	1.167	1.00
200_I	207_A	1.165	1.00
118_A	136_I	1.163	1.00
20_R	64_H	1.161	1.00
19_Y	78_M	1.149	1.00
110_A	136_I	1.146	1.00
119_R	148_D	1.145	1.00
140_G	166_P	1.144	1.00
185_A	189_D	1.141	1.00
169_E	181_T	1.127	1.00
20_R	148_D	1.124	1.00
180_G	183_L	1.118	1.00
136_I	162_L	1.096	1.00
107_I	196_H	1.077	1.00
11_V	83_K	1.074	1.00
146_L	166_P	1.069	1.00
213_L	217_E	1.065	1.00
17_T	145_H	1.062	1.00
7_K	26_D	1.059	1.00
153_E	166_P	1.056	1.00
8_V	21_V	1.048	1.00
126_L	158_K	1.048	1.00
125_A	134_I	1.043	1.00
54_T	123_L	1.042	1.00
108_L	121_I	1.039	1.00
122_L	134_I	1.037	1.00
143_E	168_V	1.037	1.00
197_D	224_R	1.035	1.00
141_R	169_E	1.033	1.00
108_L	134_I	1.033	1.00
71_N	74_A	1.027	1.00
205_E	209_I	1.022	1.00
41_M	73_Y	1.019	1.00
40_V	46_K	1.015	1.00
26_D	86_Q	1.008	1.00
178_R	189_D	1.006	1.00
159_H	162_L	0.997	1.00
151_E	154_A	0.996	1.00
17_T	66_G	0.995	1.00
81_I	85_H	0.995	1.00
178_R	181_T	0.981	1.00
137_Y	165_V	0.975	1.00
11_V	82_L	0.975	1.00
149_L	164_V	0.971	1.00
56_D	127_A	0.969	1.00
146_L	149_L	0.965	1.00
142_E	170_Q	0.961	1.00
153_E	157_L	0.960	1.00
184_T	189_D	0.960	1.00
208_K	212_D	0.951	1.00
18_V	147_Y	0.948	1.00
39_V	63_L	0.944	1.00
209_I	212_D	0.943	1.00
76_A	80_R	0.943	1.00
140_G	168_V	0.928	1.00
57_E	123_L	0.926	1.00
139_G	167_V	0.921	1.00
32_R	97_W	0.921	1.00
33_A	124_T	0.920	1.00
184_T	217_E	0.913	1.00
154_A	157_L	0.910	1.00
150_C	154_A	0.903	1.00
68_S	71_N	0.895	1.00
49_F	74_A	0.893	1.00
209_I	213_L	0.888	1.00
221_R	224_R	0.875	1.00
15_T	145_H	0.869	1.00
106_M	125_A	0.867	1.00
98_L	106_M	0.857	1.00
28_A	61_I	0.854	1.00
115_F	152_L	0.852	1.00
16_D	145_H	0.852	1.00
98_L	121_I	0.849	1.00
25_P	28_A	0.841	1.00
150_C	153_E	0.835	1.00
188_Q	218_R	0.834	1.00
138_W	147_Y	0.833	1.00
108_L	122_L	0.830	1.00
122_L	152_L	0.829	1.00
184_T	213_L	0.827	1.00
31_F	55_P	0.821	1.00
45_D	72_L	0.820	1.00
8_V	11_V	0.820	1.00
192_T	196_H	0.817	1.00
140_G	145_H	0.809	1.00
212_D	215_C	0.809	1.00
53_S	123_L	0.804	1.00
45_D	73_Y	0.801	1.00
148_D	151_E	0.799	1.00
104_R	132_R	0.797	1.00
126_L	155_L	0.791	1.00
77_V	81_I	0.790	1.00
122_L	136_I	0.788	1.00
69_E	72_L	0.786	1.00
64_H	116_S	0.785	1.00
122_L	155_L	0.785	1.00
213_L	218_R	0.784	1.00
137_Y	167_V	0.784	1.00
65_I	77_V	0.781	1.00
57_E	60_F	0.778	1.00
115_F	138_W	0.775	1.00
149_L	166_P	0.773	1.00
141_R	170_Q	0.770	1.00
181_T	205_E	0.770	1.00
56_D	59_G	0.767	1.00
156_S	160_P	0.758	1.00
31_F	120_S	0.751	1.00
39_V	77_V	0.748	1.00
52_A	62_E	0.747	1.00
24_V	59_G	0.746	1.00
54_T	127_A	0.742	1.00
70_I	75_K	0.741	1.00
109_I	137_Y	0.740	1.00
106_M	134_I	0.738	1.00
175_W	179_T	0.736	1.00
13_A	16_D	0.735	1.00
105_P	132_R	0.730	1.00
46_K	90_D	0.726	1.00
9_T	22_R	0.721	1.00
108_L	199_Y	0.720	1.00
193_L	196_H	0.717	1.00
151_E	155_L	0.716	1.00
111_G	205_E	0.716	1.00
31_F	53_S	0.715	1.00
195_E	224_R	0.714	1.00
104_R	224_R	0.712	1.00
32_R	35_Q	0.710	1.00
90_D	93_H	0.705	1.00
31_F	54_T	0.704	1.00
56_D	124_T	0.703	1.00
178_R	188_Q	0.701	1.00
183_L	217_E	0.700	1.00
50_S	118_A	0.699	1.00
183_L	186_V	0.699	1.00
55_P	124_T	0.699	1.00
73_Y	77_V	0.698	1.00
53_S	62_E	0.696	1.00
200_I	214_F	0.696	1.00
156_S	162_L	0.694	1.00
21_V	65_I	0.694	1.00
200_I	211_R	0.691	1.00
115_F	148_D	0.687	1.00
170_Q	181_T	0.685	1.00
14_I	64_H	0.685	1.00
124_T	127_A	0.684	1.00
106_M	132_R	0.678	1.00
172_E	175_W	0.674	1.00
18_V	64_H	0.673	1.00
109_I	198_I	0.672	1.00
94_G	97_W	0.669	1.00
122_L	162_L	0.666	1.00
43_E	76_A	0.665	1.00
142_E	171_P	0.661	1.00
210_A	213_L	0.661	1.00
38_M	46_K	0.660	1.00
31_F	51_M	0.659	1.00
51_M	61_I	0.651	1.00
36_Y	48_P	0.651	1.00
121_I	199_Y	0.648	1.00
40_V	90_D	0.640	1.00
119_R	152_L	0.639	1.00
91_I	94_G	0.637	1.00
137_Y	189_D	0.635	1.00
76_A	81_I	0.634	1.00
107_I	135_T	0.632	1.00
23_I	87_I	0.631	1.00
47_R	73_Y	0.631	1.00
25_P	29_F	0.630	1.00
37_L	61_I	0.628	1.00
126_L	134_I	0.627	1.00
192_T	195_E	0.624	1.00
47_R	72_L	0.623	1.00
65_I	74_A	0.623	1.00
177_G	180_G	0.620	1.00
57_E	127_A	0.615	1.00
171_P	175_W	0.612	1.00
208_K	211_R	0.604	1.00
187_L	218_R	0.603	1.00
181_T	209_I	0.601	1.00
99_R	197_D	0.600	1.00
100_D	124_T	0.600	1.00
38_M	93_H	0.596	1.00
47_R	71_N	0.595	1.00
156_S	164_V	0.590	1.00
103_E	197_D	0.590	1.00
206_M	209_I	0.586	1.00
220_A	224_R	0.584	1.00
143_E	175_W	0.584	1.00
126_L	162_L	0.582	1.00
74_A	78_M	0.580	1.00
143_E	172_E	0.580	1.00
17_T	141_R	0.579	1.00
96_A	117_Y	0.579	1.00
40_V	44_R	0.579	1.00
123_L	155_L	0.573	1.00
106_M	197_D	0.572	1.00
62_E	151_E	0.571	1.00
182_V	186_V	0.569	1.00
41_M	45_D	0.568	1.00
111_G	139_G	0.568	1.00
43_E	72_L	0.567	1.00
19_Y	67_A	0.562	1.00
98_L	125_A	0.559	1.00
103_E	131_N	0.558	1.00
169_E	209_I	0.558	1.00
171_P	179_T	0.555	1.00
66_G	203_R	0.554	1.00
49_F	201_A	0.553	1.00
187_L	217_E	0.551	1.00
61_I	89_V	0.551	1.00
57_E	62_E	0.546	1.00
156_S	163_Q	0.545	1.00
21_V	78_M	0.544	1.00
103_E	106_M	0.542	1.00
133_D	161_G	0.540	1.00
39_V	89_V	0.539	1.00
133_D	194_A	0.537	1.00
54_T	57_E	0.535	1.00
81_I	87_I	0.534	1.00
53_S	57_E	0.533	1.00
69_E	75_K	0.528	1.00
72_L	75_K	0.526	1.00
17_T	67_A	0.526	1.00
105_P	195_E	0.524	1.00
106_M	199_Y	0.523	1.00
33_A	55_P	0.522	1.00
135_T	196_H	0.520	1.00
38_M	47_R	0.519	1.00
32_R	124_T	0.518	1.00
205_E	208_K	0.517	1.00
148_D	152_L	0.514	1.00
25_P	61_I	0.512	1.00
35_Q	97_W	0.511	1.00
64_H	113_T	0.509	1.00
167_V	186_V	0.508	1.00
100_D	128_R	0.506	1.00
34_G	50_S	0.506	1.00
122_L	125_A	0.504	1.00
203_R	207_A	0.502	1.00
11_V	14_I	0.502	1.00
67_A	74_A	0.501	1.00
111_G	209_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
1qfjA	1	0.9657	100	0.164	Contact Map
1tvcA	1	0.9957	100	0.181	Contact Map
1krhA	1	0.9828	100	0.191	Contact Map
1gvhA	3	0.9914	100	0.192	Contact Map
1cqxA	2	0.9871	100	0.204	Contact Map
4p6vF	1	0.9828	100	0.21	Contact Map
2r6hA	1	0.9785	100	0.214	Contact Map
4g1vA	3	0.9571	100	0.221	Contact Map
4u9uA	1	0.9828	100	0.23	Contact Map
2eixA	2	0.97	100	0.232	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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