YQBN - BACSU - GREMLIN Contacts

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YQBN - Uncharacterized protein YqbN

UniProt:	P45930	Sequences: MSEKQNEKVYDLSFFMPGQTIEAEEVEVPISKRFVDKEGNVVPFIFKAITTERIDELEKENTTYKNVKGRGRVKELDSQRFYARIAVETTVYPNFKAKELREAYKTEDPVEVAKRVLSVGGEYANWLNKAIEINGFDDDLEDLEEAAKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	149 (136)
Sequences:	173 (148)
Seq/√Len:	12.7

BACSU - YQBN XKDN

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
90_T	126_W	4.190	1.00
27_E	45_I	3.928	0.99
54_I	81_F	3.662	0.99
94_N	97_A	3.371	0.98
98_K	102_E	3.131	0.97
20_T	33_R	2.704	0.93
95_F	101_R	2.514	0.91
106_T	112_V	2.448	0.89
16_M	147_A	2.368	0.88
27_E	43_P	2.083	0.80
49_I	85_I	2.072	0.79
101_R	112_V	2.041	0.78
90_T	95_F	2.007	0.77
60_E	84_R	1.993	0.77
95_F	113_A	1.954	0.75
80_R	84_R	1.887	0.72
14_F	42_V	1.815	0.69
95_F	116_V	1.804	0.69
129_K	132_E	1.789	0.68
125_N	128_N	1.769	0.67
31_S	34_F	1.719	0.65
12_L	31_S	1.683	0.63
53_R	88_E	1.666	0.62
19_Q	103_A	1.634	0.61
33_R	122_E	1.605	0.59
101_R	116_V	1.584	0.58
81_F	85_I	1.583	0.58
44_F	95_F	1.574	0.58
17_P	103_A	1.549	0.57
61_N	84_R	1.533	0.56
21_I	142_D	1.471	0.53
25_E	61_N	1.450	0.52
25_E	45_I	1.445	0.51
75_E	143_L	1.444	0.51
27_E	141_E	1.441	0.51
33_R	117_L	1.440	0.51
67_V	70_R	1.434	0.51
14_F	18_G	1.434	0.51
44_F	92_Y	1.417	0.50
47_K	88_E	1.385	0.48
76_L	123_Y	1.363	0.47
46_F	89_T	1.356	0.47
57_L	61_N	1.320	0.45
13_S	52_E	1.313	0.45
81_F	134_N	1.287	0.43
38_E	111_E	1.273	0.43
47_K	138_D	1.230	0.40
52_E	115_R	1.223	0.40
49_I	55_D	1.189	0.38
77_D	138_D	1.157	0.37
49_I	111_E	1.120	0.35
110_V	120_G	1.117	0.35
111_E	133_I	1.094	0.34
89_T	134_N	1.092	0.34
66_N	70_R	1.033	0.31
85_I	109_P	1.023	0.31
84_R	123_Y	1.020	0.30
34_F	117_L	1.018	0.30
50_T	64_Y	1.005	0.30
20_T	103_A	1.001	0.30
17_P	115_R	0.987	0.29
131_I	135_G	0.976	0.29
98_K	107_E	0.973	0.28
95_F	103_A	0.965	0.28
108_D	111_E	0.953	0.28
90_T	116_V	0.946	0.27
66_N	69_G	0.936	0.27
146_A	149_N	0.934	0.27
114_K	123_Y	0.933	0.27
99_E	145_E	0.924	0.26
57_L	115_R	0.917	0.26
43_P	50_T	0.913	0.26
56_E	142_D	0.913	0.26
120_G	136_F	0.899	0.25
56_E	94_N	0.887	0.25
41_V	44_F	0.885	0.25
18_G	26_V	0.883	0.25
60_E	123_Y	0.881	0.25
11_D	97_A	0.880	0.25
96_K	109_P	0.876	0.25
14_F	31_S	0.871	0.24
18_G	127_L	0.871	0.24
17_P	104_Y	0.871	0.24
101_R	113_A	0.865	0.24
73_V	79_Q	0.859	0.24
26_V	46_F	0.857	0.24
58_E	97_A	0.852	0.24
86_A	97_A	0.849	0.24
81_F	106_T	0.846	0.23
100_L	104_Y	0.846	0.23
63_T	141_E	0.840	0.23
70_R	73_V	0.839	0.23
37_K	41_V	0.835	0.23
43_P	102_E	0.834	0.23
11_D	69_G	0.830	0.23
135_G	146_A	0.829	0.23
32_K	138_D	0.819	0.22
21_I	25_E	0.812	0.22
11_D	113_A	0.811	0.22
42_V	76_L	0.810	0.22
77_D	90_T	0.807	0.22
83_A	114_K	0.807	0.22
37_K	132_E	0.800	0.22
44_F	117_L	0.798	0.22
84_R	110_V	0.794	0.22
61_N	120_G	0.791	0.21
28_V	31_S	0.786	0.21
13_S	83_A	0.782	0.21
31_S	117_L	0.776	0.21
86_A	127_L	0.775	0.21
26_V	129_K	0.747	0.20
95_F	112_V	0.747	0.20
16_M	76_L	0.742	0.20
30_I	68_K	0.742	0.20
63_T	145_E	0.737	0.20
108_D	130_A	0.735	0.20
16_M	78_S	0.733	0.19
49_I	143_L	0.730	0.19
20_T	104_Y	0.725	0.19
89_T	136_F	0.721	0.19
75_E	131_I	0.721	0.19
47_K	142_D	0.710	0.19
80_R	128_N	0.709	0.19
24_E	147_A	0.708	0.19
31_S	39_G	0.705	0.19
81_F	101_R	0.703	0.19
28_V	46_F	0.703	0.19
82_Y	142_D	0.703	0.19
90_T	144_E	0.702	0.19
141_E	145_E	0.700	0.18
46_F	80_R	0.697	0.18
43_P	88_E	0.682	0.18
58_E	136_F	0.681	0.18
87_V	105_K	0.675	0.18
43_P	54_I	0.673	0.18
110_V	129_K	0.670	0.18
12_L	106_T	0.665	0.17
19_Q	106_T	0.663	0.17
68_K	102_E	0.661	0.17
125_N	137_D	0.657	0.17
121_G	130_A	0.656	0.17
58_E	120_G	0.654	0.17
19_Q	91_V	0.653	0.17
43_P	47_K	0.651	0.17
85_I	89_T	0.650	0.17
55_D	114_K	0.649	0.17
20_T	117_L	0.648	0.17
101_R	108_D	0.634	0.16
108_D	113_A	0.629	0.16
77_D	145_E	0.626	0.16
18_G	46_F	0.626	0.16
30_I	39_G	0.626	0.16
49_I	54_I	0.612	0.16
26_V	128_N	0.612	0.16
20_T	136_F	0.607	0.16
34_F	86_A	0.607	0.16
73_V	85_I	0.607	0.16
45_I	136_F	0.604	0.16
61_N	147_A	0.603	0.16
66_N	97_A	0.602	0.16
22_E	45_I	0.598	0.15
16_M	109_P	0.596	0.15
137_D	146_A	0.595	0.15
40_N	67_V	0.594	0.15
13_S	74_K	0.591	0.15
139_D	144_E	0.587	0.15
38_E	145_E	0.584	0.15
100_L	112_V	0.580	0.15
99_E	123_Y	0.580	0.15
137_D	145_E	0.571	0.15
56_E	127_L	0.571	0.15
44_F	109_P	0.568	0.15
62_T	74_K	0.549	0.14
68_K	123_Y	0.548	0.14
63_T	111_E	0.541	0.14
45_I	56_E	0.540	0.14
38_E	46_F	0.539	0.14
72_R	85_I	0.539	0.14
73_V	133_I	0.539	0.14
32_K	92_Y	0.538	0.14
48_A	129_K	0.536	0.14
66_N	71_G	0.536	0.14
15_F	122_E	0.535	0.14
66_N	131_I	0.533	0.14
84_R	87_V	0.531	0.14
54_I	90_T	0.528	0.14
99_E	142_D	0.527	0.14
21_I	27_E	0.525	0.14
42_V	147_A	0.525	0.14
19_Q	144_E	0.522	0.14
78_S	99_E	0.521	0.14
60_E	99_E	0.520	0.13
46_F	130_A	0.519	0.13
120_G	129_K	0.518	0.13
12_L	112_V	0.516	0.13
51_T	54_I	0.514	0.13
82_Y	98_K	0.512	0.13
98_K	126_W	0.512	0.13
55_D	138_D	0.512	0.13
57_L	147_A	0.509	0.13
24_E	91_V	0.509	0.13
50_T	120_G	0.508	0.13
81_F	89_T	0.504	0.13
83_A	124_A	0.500	0.13

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
3kluA	1	0.7919	100	0.195	Contact Map
3j8bE	1	0.4698	7.4	0.958	Contact Map
1g5zA	2	0.5436	5.6	0.96	Contact Map
4dvyP	1	0.8389	4.9	0.961	Contact Map
1y4sA	2	0	4.7	0.961	Contact Map
1yjgA	2	0.4966	4.7	0.961	Contact Map
2kdoA	1	0.7584	4.6	0.962	Contact Map
3w8iB	1	0.3624	3.9	0.963	Contact Map
3pmkN	1	0.2013	3.9	0.963	Contact Map
1t95A	1	0.6644	3.9	0.963	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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