YYCE - BACSU - GREMLIN Contacts

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YYCE - Uncharacterized protein YycE

UniProt:	P37479	Sequences: MGKRFSSFQAAQIRIARPTGQLDEIIRFYEEGLCLKRIGEFSQHNGYDGVMFGLPHADYHLEFTQYEGGSTAPVPHPDSLLVFYVPNAVELAAITSKLKHMGYQEVESENPYWSNGGVTIEDPDGWRIVFMNSKGISGK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	139 (123)
Sequences:	365 (243)
Seq/√Len:	21.9

BACSU - YYCE

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_L	81_L	4.307	1.00
28_F	123_P	2.971	0.99
64_T	78_D	2.970	0.99
37_R	40_E	2.802	0.99
91_L	131_M	2.769	0.99
20_G	72_A	2.667	0.99
21_Q	24_E	2.416	0.98
59_Y	83_F	2.341	0.97
96_S	100_H	2.264	0.96
88_A	92_A	2.231	0.96
41_F	49_G	2.190	0.96
28_F	95_T	2.180	0.95
105_E	118_V	2.092	0.94
45_N	115_N	2.076	0.94
30_E	52_F	2.054	0.94
51_M	60_H	1.904	0.91
19_T	25_I	1.862	0.90
36_K	55_P	1.784	0.88
72_A	79_S	1.769	0.87
35_L	54_L	1.760	0.87
66_Y	79_S	1.735	0.86
51_M	111_P	1.731	0.86
98_L	128_I	1.724	0.86
41_F	44_H	1.694	0.85
27_R	31_E	1.687	0.84
74_V	79_S	1.606	0.81
26_I	50_V	1.423	0.73
32_G	119_T	1.422	0.73
31_E	93_A	1.386	0.71
30_E	37_R	1.382	0.70
18_P	51_M	1.361	0.69
26_I	30_E	1.350	0.68
28_F	34_C	1.318	0.67
20_G	70_S	1.299	0.65
80_L	119_T	1.298	0.65
15_I	76_H	1.287	0.65
71_T	108_S	1.286	0.65
26_I	37_R	1.281	0.64
20_G	79_S	1.233	0.61
44_H	64_T	1.196	0.59
44_H	47_Y	1.195	0.59
59_Y	79_S	1.191	0.59
108_S	114_S	1.133	0.55
66_Y	109_E	1.122	0.54
95_T	120_I	1.119	0.54
109_E	126_W	1.118	0.54
77_P	121_E	1.111	0.53
97_K	130_F	1.110	0.53
71_T	114_S	1.094	0.52
44_H	110_N	1.060	0.50
19_T	79_S	1.060	0.50
121_E	127_R	1.054	0.49
76_H	79_S	1.053	0.49
14_R	17_R	1.051	0.49
103_Y	118_V	1.047	0.49
94_I	132_N	1.038	0.48
69_G	109_E	1.030	0.48
44_H	49_G	1.016	0.47
57_A	61_L	1.002	0.46
22_L	25_I	0.985	0.45
45_N	52_F	0.980	0.44
109_E	114_S	0.976	0.44
28_F	103_Y	0.975	0.44
19_T	66_Y	0.974	0.44
42_S	58_D	0.971	0.44
76_H	130_F	0.969	0.44
33_L	130_F	0.963	0.43
13_I	83_F	0.945	0.42
42_S	86_P	0.943	0.42
119_T	127_R	0.932	0.41
84_Y	113_W	0.910	0.40
30_E	93_A	0.910	0.40
41_F	63_F	0.892	0.39
117_G	131_M	0.882	0.38
25_I	63_F	0.878	0.38
106_V	121_E	0.877	0.38
32_G	75_P	0.877	0.38
23_D	96_S	0.869	0.37
26_I	40_E	0.858	0.36
12_Q	73_P	0.857	0.36
31_E	52_F	0.857	0.36
19_T	70_S	0.851	0.36
35_L	46_G	0.848	0.36
66_Y	71_T	0.847	0.36
23_D	26_I	0.847	0.36
43_Q	96_S	0.843	0.35
20_G	66_Y	0.834	0.35
47_Y	131_M	0.834	0.35
66_Y	69_G	0.822	0.34
43_Q	111_P	0.820	0.34
45_N	111_P	0.815	0.34
19_T	28_F	0.803	0.33
35_L	118_V	0.803	0.33
30_E	90_E	0.800	0.33
35_L	70_S	0.791	0.32
66_Y	70_S	0.785	0.32
39_G	44_H	0.783	0.32
68_G	121_E	0.775	0.31
18_P	76_H	0.766	0.31
17_R	74_V	0.752	0.30
54_L	83_F	0.747	0.30
99_K	118_V	0.743	0.30
70_S	73_P	0.741	0.29
22_L	27_R	0.740	0.29
35_L	73_P	0.738	0.29
80_L	112_Y	0.732	0.29
64_T	110_N	0.730	0.29
39_G	51_M	0.727	0.29
76_H	85_V	0.717	0.28
18_P	102_G	0.716	0.28
95_T	117_G	0.711	0.28
13_I	92_A	0.710	0.28
34_C	123_P	0.707	0.28
61_L	76_H	0.706	0.27
110_N	113_W	0.704	0.27
75_P	80_L	0.698	0.27
14_R	22_L	0.693	0.27
83_F	121_E	0.688	0.27
27_R	93_A	0.679	0.26
41_F	64_T	0.677	0.26
60_H	80_L	0.676	0.26
58_D	88_A	0.676	0.26
44_H	111_P	0.675	0.26
21_Q	126_W	0.673	0.26
80_L	127_R	0.673	0.26
80_L	129_V	0.667	0.25
117_G	120_I	0.662	0.25
79_S	126_W	0.658	0.25
91_L	120_I	0.654	0.25
94_I	123_P	0.652	0.25
17_R	61_L	0.649	0.24
93_A	107_E	0.646	0.24
11_A	59_Y	0.644	0.24
31_E	45_N	0.641	0.24
91_L	94_I	0.640	0.24
97_K	123_P	0.638	0.24
97_K	133_S	0.634	0.24
88_A	115_N	0.630	0.24
130_F	133_S	0.629	0.24
36_K	93_A	0.621	0.23
37_R	52_F	0.616	0.23
69_G	72_A	0.611	0.23
87_N	132_N	0.610	0.23
77_P	116_G	0.608	0.22
30_E	42_S	0.608	0.22
73_P	76_H	0.601	0.22
41_F	47_Y	0.599	0.22
31_E	133_S	0.597	0.22
31_E	34_C	0.584	0.21
46_G	86_P	0.584	0.21
32_G	98_L	0.583	0.21
114_S	126_W	0.582	0.21
24_E	27_R	0.577	0.21
78_D	96_S	0.577	0.21
16_A	117_G	0.576	0.21
42_S	105_E	0.575	0.21
71_T	78_D	0.567	0.21
24_E	34_C	0.561	0.20
15_I	127_R	0.558	0.20
93_A	115_N	0.556	0.20
22_L	82_V	0.554	0.20
101_M	132_N	0.554	0.20
35_L	51_M	0.552	0.20
84_Y	110_N	0.549	0.20
36_K	100_H	0.543	0.20
89_V	92_A	0.538	0.19
68_G	73_P	0.530	0.19
84_Y	117_G	0.529	0.19
28_F	57_A	0.522	0.19
91_L	126_W	0.520	0.19
16_A	82_V	0.520	0.19
39_G	132_N	0.517	0.18
15_I	38_I	0.517	0.18
37_R	96_S	0.516	0.18
32_G	127_R	0.511	0.18
24_E	89_V	0.510	0.18
46_G	95_T	0.508	0.18
37_R	48_D	0.508	0.18
25_I	79_S	0.507	0.18
88_A	118_V	0.507	0.18
48_D	94_I	0.505	0.18
18_P	75_P	0.504	0.18
29_Y	90_E	0.503	0.18
41_F	46_G	0.500	0.18

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
1twuA	2	0.9856	99.8	0.71	Contact Map
2qqzA	2	0.8849	99	0.811	Contact Map
3e5dA	2	0.8777	99	0.812	Contact Map
3ghjA	2	0.8273	99	0.813	Contact Map
1zswA	1	0.964	99	0.816	Contact Map
4nazA	2	0.8345	98.9	0.818	Contact Map
4jh2A	2	0.8921	98.9	0.82	Contact Map
4hc5A	2	0.9281	98.9	0.821	Contact Map
1r9cA	2	0.8777	98.9	0.821	Contact Map
2c21A	2	0.8921	98.9	0.821	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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