YEDL - ECOLI - GREMLIN Contacts

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YEDL - Uncharacterized N-acetyltransferase YedL

UniProt:	P76319	Sequences: MFTIKTDDLTHPAVQALVAYHISGMLQQSPPESSHALDVQKLRNPTVTFWSVWEGEQLAGIGALKLLDDKHGELKSMRTAPNYLRRGVASLILRHILQVAQDRCLHRLSLETGTQAGFTACHQLYLKHGFADCEPFADYRLDPHSRFLSLTLCENNELP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13279
Length:	159 (133)
Sequences:	9805 (7727)
Seq/√Len:	670.0

ECOLI - YEDL YJGM RIMI MNAT YPEA PHNO YIAC YAFP YJAB
BACSU - YSNE YBFA YTMI YHFO YHDJ YUAI PAIA YWNH YESJ YQJY YYAR RIMI YDGE YVBK YYCN YITI BLTD SPSD YBBJ
HALSA - Q9HSL3 Q9HMF0 Q9HMI8 Q9HQD2 Q9HRK6
SULSO - Q7LXZ8 Y209

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_L	130_F	3.550	1.00
20_Y	80_A	2.895	1.00
90_S	127_K	2.749	1.00
52_V	88_V	2.742	1.00
59_A	83_Y	2.728	1.00
90_S	128_H	2.700	1.00
62_G	96_I	2.683	1.00
94_R	128_H	2.482	1.00
93_L	128_H	2.325	1.00
126_L	132_D	2.273	1.00
97_L	108_L	2.242	1.00
99_V	103_R	2.216	1.00
50_W	95_H	2.205	1.00
99_V	102_D	2.188	1.00
54_E	86_R	2.095	1.00
95_H	98_Q	2.040	1.00
51_S	58_L	2.007	1.00
54_E	59_A	1.908	1.00
122_H	126_L	1.829	1.00
53_W	58_L	1.788	1.00
57_Q	82_N	1.761	1.00
70_K	106_H	1.753	1.00
48_T	99_V	1.648	1.00
54_E	83_Y	1.647	1.00
95_H	99_V	1.630	1.00
66_L	105_L	1.600	1.00
110_L	125_Y	1.540	1.00
72_G	105_L	1.526	1.00
60_G	79_T	1.520	1.00
13_A	16_A	1.517	1.00
53_W	56_E	1.475	1.00
132_D	135_P	1.445	1.00
112_T	116_A	1.443	1.00
71_H	109_S	1.440	1.00
49_F	63_A	1.416	1.00
122_H	132_D	1.404	1.00
123_Q	126_L	1.392	1.00
72_G	100_A	1.378	1.00
90_S	94_R	1.316	1.00
15_Q	19_A	1.282	1.00
19_A	23_S	1.275	1.00
74_L	93_L	1.271	1.00
13_A	53_W	1.240	1.00
71_H	107_R	1.234	1.00
98_Q	102_D	1.212	1.00
12_P	16_A	1.212	1.00
62_G	92_I	1.192	1.00
50_W	99_V	1.189	1.00
84_L	120_A	1.185	1.00
64_L	96_I	1.160	1.00
83_Y	86_R	1.137	1.00
64_L	99_V	1.126	1.00
16_A	20_Y	1.105	1.00
94_R	98_Q	1.094	1.00
87_G	90_S	1.082	1.00
57_Q	80_A	1.075	1.00
52_V	60_G	1.075	1.00
121_C	125_Y	1.064	1.00
119_T	122_H	1.063	1.00
72_G	108_L	1.062	1.00
79_T	88_V	1.058	1.00
37_L	40_Q	1.055	1.00
80_A	83_Y	1.054	1.00
93_L	125_Y	1.043	1.00
66_L	103_R	1.042	1.00
97_L	101_Q	1.038	1.00
34_S	38_D	0.987	1.00
60_G	88_V	0.980	1.00
20_Y	82_N	0.978	1.00
28_Q	120_A	0.977	1.00
37_L	41_K	0.977	1.00
13_A	58_L	0.963	1.00
48_T	103_R	0.954	1.00
91_L	94_R	0.946	1.00
110_L	121_C	0.945	1.00
24_G	81_P	0.938	1.00
108_L	130_F	0.932	1.00
64_L	100_A	0.924	1.00
88_V	91_L	0.918	1.00
54_E	57_Q	0.915	1.00
124_L	128_H	0.913	1.00
112_T	122_H	0.903	1.00
34_S	42_L	0.903	1.00
16_A	80_A	0.901	1.00
6_T	48_T	0.900	1.00
77_M	93_L	0.887	1.00
34_S	37_L	0.885	1.00
137_A	140_R	0.878	1.00
10_T	53_W	0.877	1.00
113_G	116_A	0.859	1.00
93_L	124_L	0.854	1.00
62_G	77_M	0.849	1.00
7_D	11_H	0.844	1.00
17_L	58_L	0.840	1.00
109_S	133_C	0.840	1.00
91_L	95_H	0.827	1.00
73_E	76_S	0.826	1.00
59_A	88_V	0.822	1.00
98_Q	101_Q	0.820	1.00
100_A	108_L	0.819	1.00
115_Q	119_T	0.810	1.00
119_T	123_Q	0.803	1.00
112_T	121_C	0.777	1.00
13_A	57_Q	0.772	1.00
52_V	79_T	0.763	1.00
63_A	75_K	0.760	1.00
21_H	78_R	0.759	1.00
120_A	123_Q	0.759	1.00
68_D	71_H	0.754	1.00
12_P	15_Q	0.748	1.00
116_A	120_A	0.744	1.00
77_M	125_Y	0.736	1.00
29_S	32_E	0.733	1.00
107_R	133_C	0.728	1.00
16_A	57_Q	0.725	1.00
57_Q	83_Y	0.720	1.00
35_H	39_V	0.718	1.00
65_K	75_K	0.712	1.00
35_H	38_D	0.710	1.00
39_V	43_R	0.707	1.00
67_L	73_E	0.706	1.00
20_Y	81_P	0.701	1.00
10_T	13_A	0.690	1.00
73_E	109_S	0.689	1.00
62_G	74_L	0.686	1.00
94_R	97_L	0.685	1.00
85_R	120_A	0.685	1.00
21_H	25_M	0.675	1.00
24_G	28_Q	0.672	1.00
16_A	19_A	0.667	1.00
116_A	121_C	0.664	1.00
8_D	11_H	0.664	1.00
6_T	99_V	0.659	1.00
33_S	37_L	0.655	1.00
93_L	97_L	0.649	1.00
38_D	42_L	0.648	1.00
23_S	27_Q	0.646	1.00
100_A	105_L	0.645	1.00
38_D	41_K	0.642	1.00
25_M	28_Q	0.636	1.00
85_R	123_Q	0.635	1.00
7_D	10_T	0.635	1.00
18_V	22_I	0.634	1.00
14_V	18_V	0.632	1.00
77_M	128_H	0.628	1.00
90_S	123_Q	0.626	1.00
18_V	21_H	0.626	1.00
14_V	61_I	0.625	1.00
52_V	91_L	0.617	1.00
40_Q	43_R	0.617	1.00
17_L	78_R	0.610	1.00
123_Q	127_K	0.604	1.00
21_H	24_G	0.604	1.00
22_I	25_M	0.601	1.00
74_L	108_L	0.600	1.00
85_R	127_K	0.596	1.00
8_D	39_V	0.595	1.00
33_S	38_D	0.594	1.00
74_L	96_I	0.594	1.00
7_D	51_S	0.593	1.00
6_T	50_W	0.591	1.00
60_G	92_I	0.588	1.00
49_F	61_I	0.587	1.00
61_I	116_A	0.587	1.00
70_K	107_R	0.584	1.00
24_G	84_L	0.578	1.00
33_S	41_K	0.576	1.00
116_A	122_H	0.573	1.00
101_Q	104_C	0.572	1.00
44_N	47_V	0.568	1.00
116_A	119_T	0.566	1.00
112_T	125_Y	0.564	1.00
64_L	72_G	0.564	1.00
111_E	137_A	0.551	1.00
11_H	15_Q	0.551	1.00
74_L	110_L	0.548	1.00
33_S	36_A	0.543	1.00
59_A	82_N	0.542	1.00
121_C	124_L	0.541	1.00
17_L	21_H	0.541	1.00
28_Q	31_P	0.539	1.00
64_L	103_R	0.539	1.00
77_M	110_L	0.538	1.00
14_V	49_F	0.537	1.00
24_G	27_Q	0.533	1.00
85_R	124_L	0.531	1.00
67_L	109_S	0.530	1.00
86_R	124_L	0.529	1.00
77_M	121_C	0.526	0.99
134_E	137_A	0.525	0.99
62_G	93_L	0.520	0.99
50_W	96_I	0.517	0.99
119_T	126_L	0.516	0.99
73_E	111_E	0.511	0.99
79_T	92_I	0.511	0.99
84_L	121_C	0.506	0.99
52_V	92_I	0.505	0.99
18_V	78_R	0.503	0.99
21_H	29_S	0.501	0.99
65_K	111_E	0.500	0.99

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
3lodA	1	0.8931	99.9	0.34	Contact Map
2j8mA	2	0.9874	99.9	0.365	Contact Map
3d8pA	1	0.9497	99.9	0.365	Contact Map
3dr6A	2	0.9811	99.9	0.367	Contact Map
1yx0A	1	0.9371	99.8	0.387	Contact Map
3fynA	2	0.8679	99.8	0.389	Contact Map
3fixA	2	0.8994	99.8	0.391	Contact Map
2fiaA	1	0.9434	99.8	0.392	Contact Map
2r7hA	2	0.9371	99.8	0.394	Contact Map
2oh1A	1	0.9119	99.8	0.395	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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