YWQK - BACSU - GREMLIN Contacts

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YWQK - Putative antitoxin YwqK

UniProt:	P96723	Sequences: MENEYDMKSIKEKGVDFEDLWFSSVSDEILDNPEDENGQPFTGLAYELYPNGQIIYFTKYKNGLAHGLTCEFYENGNKKSEKEYRYGQLHGISIIWFENGRKKSEQQYEHSILISEKNWDEEGNLLNKYEIDTDSPHFEILESRRETHINLGRE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	154 (119)
Sequences:	317 (297)
Seq/√Len:	27.2

BACSU - YWQK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
94_I	105_E	3.084	1.00
58_T	69_T	2.988	1.00
69_T	93_S	2.697	0.99
92_I	105_E	2.677	0.99
46_Y	57_F	2.656	0.99
56_Y	69_T	2.604	0.99
69_T	80_S	2.581	0.99
82_K	93_S	2.576	0.99
106_Q	116_E	2.483	0.99
80_S	93_S	2.252	0.98
65_A	84_Y	2.168	0.98
81_E	94_I	2.142	0.97
41_F	63_G	2.110	0.97
25_V	28_E	1.896	0.95
66_H	85_R	1.836	0.94
104_S	116_E	1.812	0.93
69_T	82_K	1.800	0.93
21_W	24_S	1.786	0.93
56_Y	80_S	1.756	0.92
91_G	115_S	1.723	0.91
93_S	106_Q	1.721	0.91
70_C	78_K	1.717	0.91
72_F	96_W	1.701	0.91
34_E	45_A	1.654	0.89
102_K	108_Y	1.606	0.88
45_A	69_T	1.597	0.88
58_T	82_K	1.585	0.87
94_I	102_K	1.564	0.87
69_T	84_Y	1.538	0.86
56_Y	93_S	1.417	0.81
105_E	117_K	1.383	0.79
112_I	133_T	1.371	0.78
96_W	119_W	1.365	0.78
68_L	81_E	1.356	0.77
58_T	80_S	1.347	0.77
97_F	113_L	1.306	0.75
119_W	125_L	1.265	0.72
50_P	78_K	1.264	0.72
69_T	116_E	1.253	0.72
57_F	72_F	1.232	0.70
52_G	76_G	1.218	0.69
66_H	83_E	1.201	0.68
93_S	116_E	1.190	0.68
57_F	70_C	1.177	0.67
58_T	93_S	1.159	0.65
17_F	20_L	1.145	0.64
93_S	108_Y	1.140	0.64
117_K	125_L	1.130	0.63
58_T	65_A	1.128	0.63
77_N	95_I	1.122	0.63
100_G	122_E	1.120	0.63
97_F	108_Y	1.113	0.62
81_E	105_E	1.099	0.61
58_T	71_E	1.091	0.61
58_T	106_Q	1.064	0.59
82_K	106_Q	1.050	0.58
82_K	95_I	1.023	0.56
116_E	126_L	1.005	0.54
56_Y	106_Q	0.990	0.53
26_S	64_L	0.986	0.53
60_Y	84_Y	0.942	0.50
17_F	23_S	0.936	0.49
77_N	98_E	0.935	0.49
52_G	87_G	0.931	0.49
95_I	108_Y	0.922	0.48
69_T	106_Q	0.921	0.48
16_D	19_D	0.920	0.48
130_E	135_S	0.909	0.47
84_Y	93_S	0.902	0.47
57_F	85_R	0.899	0.46
100_G	123_G	0.898	0.46
81_E	123_G	0.885	0.45
27_D	36_E	0.885	0.45
65_A	87_G	0.877	0.45
93_S	102_K	0.876	0.45
73_Y	108_Y	0.868	0.44
26_S	66_H	0.866	0.44
16_D	21_W	0.863	0.44
65_A	71_E	0.863	0.44
33_P	70_C	0.859	0.43
132_D	135_S	0.852	0.43
23_S	38_G	0.849	0.43
120_D	126_L	0.848	0.42
120_D	124_N	0.839	0.42
18_E	23_S	0.837	0.42
36_E	63_G	0.833	0.41
53_Q	108_Y	0.828	0.41
82_K	116_E	0.826	0.41
73_Y	79_K	0.817	0.40
64_L	111_S	0.813	0.40
118_N	128_K	0.806	0.39
16_D	20_L	0.800	0.39
18_E	30_L	0.798	0.39
60_Y	65_A	0.786	0.38
16_D	23_S	0.784	0.38
30_L	120_D	0.771	0.37
23_S	31_D	0.753	0.36
58_T	130_E	0.752	0.36
56_Y	82_K	0.749	0.35
72_F	119_W	0.744	0.35
101_R	111_S	0.731	0.34
43_G	60_Y	0.731	0.34
83_E	86_Y	0.728	0.34
115_S	123_G	0.723	0.34
131_I	134_D	0.711	0.33
99_N	109_E	0.707	0.33
30_L	87_G	0.701	0.32
89_L	93_S	0.696	0.32
52_G	67_G	0.694	0.32
48_L	96_W	0.693	0.32
38_G	105_E	0.689	0.31
80_S	116_E	0.689	0.31
41_F	66_H	0.685	0.31
129_Y	135_S	0.682	0.31
45_A	111_S	0.676	0.31
35_D	87_G	0.661	0.30
53_Q	104_S	0.656	0.29
43_G	59_K	0.651	0.29
18_E	81_E	0.649	0.29
72_F	78_K	0.648	0.29
91_G	125_L	0.646	0.29
57_F	96_W	0.642	0.28
74_E	122_E	0.639	0.28
99_N	121_E	0.639	0.28
33_P	39_Q	0.637	0.28
71_E	106_Q	0.634	0.28
127_N	135_S	0.629	0.28
130_E	133_T	0.628	0.28
32_N	45_A	0.627	0.27
49_Y	128_K	0.626	0.27
74_E	124_N	0.626	0.27
68_L	96_W	0.618	0.27
22_F	90_H	0.615	0.27
53_Q	121_E	0.614	0.27
78_K	96_W	0.613	0.27
80_S	108_Y	0.606	0.26
97_F	123_G	0.605	0.26
34_E	43_G	0.594	0.26
84_Y	108_Y	0.594	0.26
51_N	83_E	0.589	0.25
57_F	104_S	0.589	0.25
113_L	124_N	0.584	0.25
97_F	101_R	0.581	0.25
45_A	56_Y	0.581	0.25
37_N	111_S	0.579	0.25
79_K	103_K	0.579	0.25
87_G	107_Q	0.576	0.24
21_W	25_V	0.574	0.24
73_Y	97_F	0.572	0.24
16_D	24_S	0.571	0.24
59_K	66_H	0.571	0.24
120_D	128_K	0.564	0.24
45_A	93_S	0.563	0.24
98_E	119_W	0.561	0.24
20_L	23_S	0.559	0.24
42_T	62_N	0.556	0.23
118_N	134_D	0.553	0.23
80_S	106_Q	0.552	0.23
40_P	86_Y	0.550	0.23
63_G	67_G	0.549	0.23
57_F	98_E	0.544	0.23
96_W	102_K	0.542	0.23
43_G	125_L	0.539	0.22
34_E	40_P	0.537	0.22
83_E	88_Q	0.532	0.22
22_F	48_L	0.529	0.22
130_E	134_D	0.522	0.22
44_L	63_G	0.519	0.21
20_L	119_W	0.518	0.21
22_F	26_S	0.514	0.21
120_D	130_E	0.514	0.21
20_L	31_D	0.511	0.21
53_Q	77_N	0.510	0.21
91_G	127_N	0.508	0.21
33_P	36_E	0.506	0.21
96_W	121_E	0.505	0.21
82_K	89_L	0.503	0.21
49_Y	123_G	0.500	0.20

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
1h3iA	1	0.8312	99.7	0.38	Contact Map
2f69A	1	0.5714	98.9	0.609	Contact Map
4ld1A	1	0.7662	97.7	0.716	Contact Map
4by2A	1	0.6234	94.9	0.791	Contact Map
3hiaA	3	0.539	49.6	0.874	Contact Map
2ww5A	1	0.7338	22.1	0.896	Contact Map
4x36A	2	0.8377	17.8	0.9	Contact Map
2bibA	1	0.7597	16.9	0.902	Contact Map
3klkA	1	0.7662	14.7	0.904	Contact Map
4cnlA	1	0.8117	9.1	0.913	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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