SGBE - ECOLI - GREMLIN Contacts

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SGBE - L-ribulose-5-phosphate 4-epimerase SgbE

UniProt:	P37680	Sequences: MLEQLKADVLAANLALPAHHLVTFTWGNVSAVDETRQWMVIKPSGVEYDVMTADDMVVVEIASGKVVEGSKKPSSDTPTHLALYRRYAEIGGIVHTHSRHATIWSQAGLDLPAWGTTHADYFYGAIPCTRQMTAEEINGEYEYQTGEVIIETFEERGRSPAQIPAVLVHSHGPFAWGKNAADAVHNAVVLEECAYMGLFSRQLAPQLPAMQNELLDKHYLRKHGANAYYGQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12287
Length:	231 (194)
Sequences:	6250 (3791)
Seq/√Len:	272.1

ECOLI - SGBE ARAD ULAF FUCA YGBL RHAD
BACSU - ARAD MTNB
HALSA - Q9HQE3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
60_E	65_K	4.844	1.00
178_K	182_D	3.294	1.00
100_H	199_F	3.167	1.00
195_Y	199_F	3.115	1.00
38_W	58_V	2.943	1.00
109_L	201_R	2.750	1.00
5_L	31_A	2.719	1.00
60_E	63_S	2.592	1.00
40_V	56_M	2.546	1.00
39_M	81_L	2.468	1.00
8_D	181_A	2.466	1.00
90_I	176_W	2.168	1.00
82_A	147_E	2.159	1.00
10_L	53_A	2.087	1.00
99_R	195_Y	2.034	1.00
100_H	195_Y	2.024	1.00
103_I	199_F	2.014	1.00
38_W	67_V	2.011	1.00
40_V	58_V	1.908	1.00
100_H	198_L	1.890	1.00
165_A	190_L	1.889	1.00
31_A	180_A	1.886	1.00
82_A	85_R	1.882	1.00
52_T	55_D	1.881	1.00
141_Y	147_E	1.870	1.00
7_A	11_A	1.847	1.00
94_V	183_A	1.765	1.00
199_F	202_Q	1.758	1.00
130_R	169_H	1.734	1.00
15_A	19_H	1.702	1.00
110_D	125_A	1.692	1.00
59_V	77_T	1.664	1.00
33_D	40_V	1.664	1.00
91_G	179_N	1.663	1.00
179_N	182_D	1.630	1.00
12_A	184_V	1.584	1.00
9_V	29_V	1.567	1.00
92_G	180_A	1.547	1.00
10_L	14_L	1.474	1.00
136_E	148_V	1.458	1.00
19_H	188_V	1.453	1.00
63_S	85_R	1.447	1.00
177_G	182_D	1.441	1.00
108_G	169_H	1.436	1.00
7_A	53_A	1.432	1.00
66_V	69_G	1.426	1.00
127_P	156_R	1.413	1.00
112_P	197_G	1.399	1.00
86_R	154_E	1.396	1.00
173_P	190_L	1.393	1.00
33_D	36_R	1.368	1.00
96_T	187_A	1.363	1.00
86_R	150_I	1.353	1.00
99_R	103_I	1.346	1.00
9_V	56_M	1.329	1.00
14_L	18_A	1.320	1.00
210_M	213_E	1.319	1.00
39_M	61_I	1.298	1.00
87_Y	90_I	1.289	1.00
31_A	92_G	1.284	1.00
175_A	187_A	1.284	1.00
140_E	144_Q	1.280	1.00
111_L	194_A	1.280	1.00
35_T	38_W	1.278	1.00
82_A	86_R	1.269	1.00
104_W	201_R	1.258	1.00
30_S	93_I	1.252	1.00
30_S	84_Y	1.250	1.00
97_H	171_H	1.242	1.00
10_L	56_M	1.233	1.00
15_A	18_A	1.219	1.00
81_L	85_R	1.191	1.00
198_L	203_L	1.183	1.00
95_H	171_H	1.179	1.00
147_E	151_E	1.168	1.00
101_A	173_P	1.167	1.00
58_V	68_E	1.155	1.00
32_V	91_G	1.151	1.00
99_R	192_E	1.151	1.00
130_R	151_E	1.144	1.00
16_L	29_V	1.133	1.00
46_V	55_D	1.128	1.00
197_G	201_R	1.127	1.00
12_A	180_A	1.116	1.00
164_P	186_N	1.109	1.00
84_Y	93_I	1.101	1.00
168_V	174_F	1.078	1.00
153_F	176_W	1.077	1.00
96_T	173_P	1.075	1.00
107_A	203_L	1.073	1.00
16_L	94_V	1.069	1.00
148_V	151_E	1.061	1.00
33_D	58_V	1.061	1.00
17_P	49_D	1.055	1.00
41_I	74_S	1.054	1.00
114_W	197_G	1.053	1.00
149_I	168_V	1.043	1.00
191_E	195_Y	1.042	1.00
100_H	191_E	1.042	1.00
102_T	105_S	1.029	1.00
110_D	128_C	1.007	1.00
46_V	71_K	1.006	1.00
165_A	175_A	1.003	1.00
192_E	195_Y	0.998	1.00
144_Q	147_E	0.989	1.00
101_A	190_L	0.986	1.00
198_L	202_Q	0.975	1.00
206_Q	210_M	0.958	1.00
13_N	29_V	0.954	1.00
87_Y	176_W	0.954	1.00
12_A	29_V	0.953	1.00
55_D	70_S	0.952	1.00
129_T	148_V	0.951	1.00
201_R	205_P	0.947	1.00
177_G	186_N	0.938	1.00
60_E	67_V	0.938	1.00
19_H	184_V	0.931	1.00
39_M	77_T	0.927	1.00
98_S	101_A	0.926	1.00
57_V	72_K	0.919	1.00
207_L	210_M	0.918	1.00
39_M	59_V	0.910	1.00
5_L	33_D	0.909	1.00
51_M	55_D	0.909	1.00
8_D	31_A	0.909	1.00
55_D	71_K	0.908	1.00
61_I	85_R	0.904	1.00
94_V	187_A	0.897	1.00
153_F	166_V	0.894	1.00
108_G	206_Q	0.888	1.00
130_R	148_V	0.884	1.00
16_L	184_V	0.883	1.00
83_L	90_I	0.880	1.00
43_P	56_M	0.876	1.00
99_R	199_F	0.875	1.00
83_L	153_F	0.874	1.00
43_P	46_V	0.867	1.00
103_I	198_L	0.865	1.00
82_A	150_I	0.854	1.00
33_D	38_W	0.851	1.00
8_D	11_A	0.843	1.00
127_P	166_V	0.834	1.00
141_Y	144_Q	0.834	1.00
151_E	154_E	0.834	1.00
200_S	207_L	0.828	0.99
98_S	187_A	0.824	0.99
41_I	76_D	0.823	0.99
79_T	149_I	0.820	0.99
111_L	193_C	0.807	0.99
137_I	213_E	0.805	0.99
10_L	51_M	0.799	0.99
106_Q	114_W	0.787	0.99
129_T	168_V	0.778	0.99
79_T	174_F	0.775	0.99
173_P	187_A	0.774	0.99
209_A	213_E	0.772	0.99
126_I	190_L	0.768	0.99
98_S	191_E	0.766	0.99
15_A	184_V	0.764	0.99
129_T	152_T	0.764	0.99
208_P	211_Q	0.758	0.99
11_A	50_V	0.757	0.99
42_K	51_M	0.745	0.99
44_S	72_K	0.743	0.99
50_V	181_A	0.741	0.99
104_W	197_G	0.732	0.99
111_L	167_L	0.730	0.99
86_R	151_E	0.729	0.99
42_K	84_Y	0.726	0.99
13_N	48_Y	0.724	0.99
182_D	186_N	0.723	0.99
32_V	61_I	0.722	0.99
76_D	145_T	0.721	0.99
6_K	40_V	0.716	0.98
32_V	37_Q	0.715	0.98
108_G	208_P	0.715	0.98
85_R	150_I	0.712	0.98
6_K	68_E	0.712	0.98
144_Q	148_V	0.703	0.98
91_G	178_K	0.698	0.98
20_H	195_Y	0.698	0.98
87_Y	153_F	0.691	0.98
16_L	21_L	0.689	0.98
77_T	81_L	0.688	0.98
109_L	205_P	0.688	0.98
130_R	136_E	0.681	0.98
114_W	201_R	0.678	0.98
5_L	8_D	0.676	0.98
24_F	185_H	0.676	0.98
190_L	194_A	0.672	0.98
46_V	51_M	0.670	0.98
37_Q	61_I	0.667	0.98
125_A	156_R	0.667	0.98
30_S	41_I	0.665	0.98
206_Q	209_A	0.664	0.98
182_D	185_H	0.663	0.98
152_T	166_V	0.662	0.97
22_V	29_V	0.654	0.97
17_P	22_V	0.651	0.97
28_N	76_D	0.650	0.97
150_I	153_F	0.648	0.97
175_A	186_N	0.648	0.97
102_T	196_M	0.645	0.97
27_G	48_Y	0.643	0.97
110_D	127_P	0.632	0.97
47_E	50_V	0.631	0.97
44_S	74_S	0.631	0.97
5_L	40_V	0.628	0.97
92_G	183_A	0.627	0.97
101_A	167_L	0.622	0.96
107_A	198_L	0.619	0.96
167_L	173_P	0.617	0.96
136_E	145_T	0.616	0.96
113_A	118_H	0.614	0.96
25_T	44_S	0.614	0.96
28_N	74_S	0.612	0.96
103_I	196_M	0.604	0.96
23_T	26_W	0.604	0.96
23_T	192_E	0.603	0.96
164_P	178_K	0.603	0.96
102_T	172_G	0.602	0.96
17_P	23_T	0.601	0.96
78_P	141_Y	0.599	0.95
57_V	66_V	0.593	0.95
121_Y	186_N	0.592	0.95
203_L	207_L	0.590	0.95
116_T	119_A	0.588	0.95
110_D	156_R	0.588	0.95
98_S	173_P	0.588	0.95
50_V	55_D	0.586	0.95
15_A	24_F	0.585	0.95
164_P	182_D	0.583	0.95
101_A	194_A	0.583	0.95
89_E	178_K	0.583	0.95
104_W	194_A	0.582	0.95
8_D	180_A	0.580	0.95
126_I	165_A	0.577	0.95
123_Y	212_N	0.577	0.95
61_I	81_L	0.575	0.94
107_A	205_P	0.575	0.94
78_P	140_E	0.569	0.94
58_V	67_V	0.568	0.94
105_S	167_L	0.566	0.94
6_K	58_V	0.564	0.94
117_T	189_V	0.563	0.94
200_S	206_Q	0.563	0.94
13_N	42_K	0.561	0.94
31_A	56_M	0.560	0.94
28_N	44_S	0.559	0.94
166_V	174_F	0.558	0.93
78_P	82_A	0.557	0.93
117_T	121_Y	0.557	0.93
32_V	39_M	0.556	0.93
19_H	24_F	0.555	0.93
64_G	81_L	0.554	0.93
44_S	75_S	0.552	0.93
104_W	109_L	0.551	0.93
131_Q	168_V	0.550	0.93
83_L	174_F	0.542	0.92
100_H	103_I	0.541	0.92
104_W	198_L	0.540	0.92
141_Y	146_G	0.536	0.92
18_A	49_D	0.534	0.92
94_V	175_A	0.533	0.92
9_V	40_V	0.531	0.92
13_N	51_M	0.530	0.92
83_L	93_I	0.528	0.91
17_P	48_Y	0.526	0.91
45_G	171_H	0.524	0.91
101_A	187_A	0.524	0.91
148_V	152_T	0.522	0.91
164_P	176_W	0.522	0.91
38_W	61_I	0.519	0.91
6_K	43_P	0.519	0.91
107_A	200_S	0.516	0.91
6_K	56_M	0.515	0.90
149_I	166_V	0.515	0.90
6_K	53_A	0.514	0.90
28_N	42_K	0.513	0.90
29_V	180_A	0.509	0.90
152_T	155_E	0.509	0.90
35_T	58_V	0.507	0.90
9_V	31_A	0.507	0.90
108_G	207_L	0.507	0.90
121_Y	189_V	0.506	0.90
170_S	210_M	0.506	0.90
9_V	13_N	0.502	0.89
139_G	144_Q	0.500	0.89
11_A	14_L	0.500	0.89
78_P	146_G	0.500	0.89
106_Q	115_G	0.500	0.89

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
1k0wA	3	0.9524	100	0.134	Contact Map
4c24A	3	0.8961	100	0.15	Contact Map
1e4cP	3	0.8831	100	0.172	Contact Map
3ocrA	4	0.9264	100	0.186	Contact Map
2opiA	3	0.8745	100	0.212	Contact Map
2fk5A	4	0.8182	100	0.215	Contact Map
4xxfA	3	0.9004	100	0.217	Contact Map
2z7bA	3	0.9351	100	0.218	Contact Map
2v9lA	3	0.9394	100	0.23	Contact Map
1pvtA	3	0.8442	100	0.233	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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