YBGC - ECOLI - GREMLIN Contacts

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YBGC - Acyl-CoA thioester hydrolase YbgC

UniProt:	P0A8Z3	Sequences: MNTTLFRWPVRVYYEDTDAGGVVYHASYVAFYERARTEMLRHHHFSQQALMAERVAFVVRKMTVEYYAPARLDDMLEIQTEITSMRGTSLVFTQRIVNAENTLLNEAEVLVVCVDPLKMKPRALPKSIVAEFKQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11110
Length:	134 (126)
Sequences:	5989 (4311)
Seq/√Len:	384.1

ECOLI - YBGC FADM
BACSU - YNEP YSMA
HALSA - Q9HPZ1
SULSO - Q97WD2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_K	65_E	3.135	1.00
83_T	93_T	2.547	1.00
68_A	102_T	2.439	1.00
32_Y	107_A	2.305	1.00
70_A	104_L	2.227	1.00
70_A	76_L	2.216	1.00
115_D	118_K	2.167	1.00
7_R	77_E	2.145	1.00
67_Y	106_E	2.117	1.00
63_T	108_E	2.115	1.00
7_R	79_Q	2.110	1.00
9_P	75_M	2.051	1.00
29_V	62_M	2.018	1.00
27_S	30_A	2.008	1.00
32_Y	105_N	1.841	1.00
79_Q	95_R	1.821	1.00
84_S	91_V	1.766	1.00
79_Q	97_V	1.763	1.00
9_P	77_E	1.711	1.00
29_V	64_V	1.670	1.00
81_E	93_T	1.652	1.00
97_V	103_L	1.635	1.00
74_D	98_N	1.622	1.00
56_A	116_P	1.608	1.00
95_R	103_L	1.592	1.00
126_K	130_A	1.562	1.00
64_V	105_N	1.546	1.00
65_E	106_E	1.489	1.00
11_R	75_M	1.480	1.00
93_T	108_E	1.479	1.00
91_V	108_E	1.478	1.00
32_Y	96_I	1.473	1.00
94_Q	109_V	1.470	1.00
11_R	41_R	1.465	1.00
78_I	96_I	1.420	1.00
86_R	89_S	1.381	1.00
23_V	31_F	1.379	1.00
98_N	102_T	1.373	1.00
95_R	106_E	1.370	1.00
35_A	80_T	1.361	1.00
88_T	121_P	1.339	1.00
38_E	42_H	1.324	1.00
11_R	38_E	1.310	1.00
9_P	99_A	1.298	1.00
75_M	99_A	1.293	1.00
98_N	104_L	1.292	1.00
60_R	65_E	1.262	1.00
49_A	53_E	1.255	1.00
83_T	108_E	1.249	1.00
69_P	119_M	1.248	1.00
15_E	30_A	1.225	1.00
49_A	52_A	1.218	1.00
89_S	110_L	1.211	1.00
62_M	109_V	1.203	1.00
33_E	36_R	1.189	1.00
46_S	49_A	1.188	1.00
125_P	128_I	1.163	1.00
16_D	30_A	1.142	1.00
41_R	73_D	1.137	1.00
48_Q	52_A	1.125	1.00
12_V	23_V	1.123	1.00
13_Y	16_D	1.122	1.00
114_V	119_M	1.103	1.00
35_A	78_I	1.101	1.00
88_T	112_V	1.099	1.00
91_V	110_L	1.092	1.00
77_E	99_A	1.072	1.00
87_G	123_A	1.067	1.00
26_A	30_A	1.034	1.00
61_K	110_L	1.022	1.00
6_F	80_T	1.018	1.00
55_V	113_C	1.013	1.00
67_Y	103_L	1.000	1.00
58_V	114_V	0.985	1.00
81_E	95_R	0.981	1.00
54_R	117_L	0.979	1.00
115_D	122_R	0.952	1.00
76_L	104_L	0.920	1.00
77_E	101_N	0.900	1.00
10_V	78_I	0.896	1.00
103_L	106_E	0.895	1.00
60_R	110_L	0.889	1.00
97_V	101_N	0.886	1.00
25_H	62_M	0.878	1.00
83_T	91_V	0.859	1.00
41_R	46_S	0.857	1.00
32_Y	64_V	0.854	1.00
127_S	130_A	0.838	1.00
14_Y	17_T	0.836	1.00
25_H	66_Y	0.834	1.00
20_G	58_V	0.831	1.00
31_F	76_L	0.815	1.00
13_Y	34_R	0.805	1.00
16_D	31_F	0.803	1.00
126_K	129_V	0.794	1.00
6_F	42_H	0.793	1.00
25_H	29_V	0.790	1.00
93_T	106_E	0.788	1.00
11_R	73_D	0.788	1.00
17_T	21_G	0.779	1.00
82_I	92_F	0.774	1.00
39_M	80_T	0.760	1.00
36_R	59_V	0.752	1.00
23_V	70_A	0.752	1.00
61_K	108_E	0.749	1.00
8_W	35_A	0.748	1.00
8_W	34_R	0.746	1.00
8_W	38_E	0.746	1.00
77_E	97_V	0.743	1.00
38_E	41_R	0.742	1.00
36_R	94_Q	0.735	1.00
60_R	67_Y	0.730	1.00
62_M	107_A	0.714	1.00
13_Y	30_A	0.714	1.00
24_Y	33_E	0.714	1.00
10_V	34_R	0.713	1.00
80_T	94_Q	0.704	1.00
78_I	94_Q	0.702	1.00
12_V	31_F	0.701	1.00
30_A	33_E	0.699	1.00
71_R	119_M	0.695	0.99
14_Y	19_A	0.692	0.99
10_V	31_F	0.691	0.99
94_Q	111_V	0.689	0.99
88_T	123_A	0.682	0.99
20_G	24_Y	0.679	0.99
12_V	76_L	0.674	0.99
22_V	58_V	0.669	0.99
48_Q	73_D	0.667	0.99
80_T	92_F	0.664	0.99
53_E	127_S	0.657	0.99
25_H	36_R	0.652	0.99
20_G	25_H	0.649	0.99
22_V	69_P	0.649	0.99
48_Q	51_M	0.643	0.99
65_E	108_E	0.642	0.99
87_G	129_V	0.640	0.99
85_M	129_V	0.638	0.99
60_R	112_V	0.636	0.99
15_E	24_Y	0.632	0.99
36_R	111_V	0.630	0.99
127_S	131_E	0.622	0.99
116_P	119_M	0.622	0.99
34_R	38_E	0.618	0.99
55_V	122_R	0.615	0.99
59_V	111_V	0.614	0.99
20_G	56_A	0.599	0.98
90_L	124_L	0.596	0.98
28_Y	70_A	0.596	0.98
27_S	31_F	0.595	0.98
46_S	73_D	0.591	0.98
39_M	82_I	0.590	0.98
60_R	89_S	0.589	0.98
89_S	112_V	0.585	0.98
14_Y	72_L	0.585	0.98
39_M	43_H	0.583	0.98
15_E	34_R	0.576	0.98
124_L	129_V	0.574	0.98
24_Y	27_S	0.572	0.98
17_T	27_S	0.567	0.98
86_R	129_V	0.566	0.98
51_M	56_A	0.565	0.98
36_R	92_F	0.564	0.98
123_A	126_K	0.561	0.98
98_N	101_N	0.557	0.98
62_M	66_Y	0.555	0.97
17_T	72_L	0.550	0.97
74_D	104_L	0.549	0.97
89_S	129_V	0.546	0.97
22_V	119_M	0.543	0.97
43_H	131_E	0.539	0.97
54_R	122_R	0.539	0.97
14_Y	20_G	0.535	0.97
59_V	109_V	0.535	0.97
57_F	113_C	0.534	0.97
37_T	72_L	0.532	0.97
85_M	90_L	0.529	0.97
14_Y	37_T	0.527	0.97
57_F	92_F	0.524	0.96
113_C	125_P	0.517	0.96
99_A	102_T	0.517	0.96
36_R	109_V	0.516	0.96
57_F	124_L	0.511	0.96
113_C	124_L	0.507	0.96
39_M	92_F	0.505	0.96
113_C	122_R	0.504	0.96
64_V	107_A	0.502	0.96
16_D	27_S	0.502	0.96
47_Q	51_M	0.500	0.95

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
2ownA	3	1	100	0.223	Contact Map
2essA	2	0.9701	100	0.23	Contact Map
2hljA	2	0.9701	100	0.265	Contact Map
1s5uA	6	1	100	0.266	Contact Map
2hx5A	4	0.9925	100	0.267	Contact Map
3ck1A	4	0.9925	100	0.27	Contact Map
2w3xA	4	1	100	0.273	Contact Map
2nujA	3	0.9851	100	0.275	Contact Map
2gf6A	4	0.9851	100	0.278	Contact Map
1njkA	4	0.9627	100	0.279	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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