YEFC - BACSU - GREMLIN Contacts

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YEFC - Resolvase homolog YefC

UniProt:	O35034	Sequences: MTPSLYNPLAIASKPFPAIYSEKILIFTIFSAFAEFERDMIVERTQEGKMLAKQNPDFREGRPKKFTKQQINHALTLLENHSYKQVEDMTGISVSTLVRAKKKKAAEAING	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	111 (97)
Sequences:	2527 (1680)
Seq/√Len:	170.5

ECOLI - PINE PINR PINQ
BACSU - YEFC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_T	32_A	3.197	1.00
24_I	35_E	2.909	1.00
11_I	14_K	2.907	1.00
25_L	36_F	2.687	1.00
37_E	44_R	2.544	1.00
57_D	60_E	2.233	1.00
42_V	46_Q	2.233	1.00
78_L	86_V	2.221	1.00
49_K	60_E	2.111	1.00
24_I	39_D	2.073	1.00
25_L	32_A	1.945	1.00
51_L	55_N	1.925	1.00
84_K	94_V	1.824	1.00
78_L	101_K	1.807	1.00
77_L	89_M	1.797	1.00
84_K	88_D	1.768	1.00
45_T	49_K	1.721	1.00
81_H	89_M	1.718	1.00
87_E	97_L	1.702	1.00
20_Y	23_K	1.676	1.00
77_L	81_H	1.611	1.00
28_T	39_D	1.575	1.00
74_A	97_L	1.532	1.00
86_V	90_T	1.525	1.00
92_I	97_L	1.461	1.00
26_I	30_F	1.399	1.00
81_H	85_Q	1.389	1.00
38_R	41_I	1.328	1.00
73_H	76_T	1.314	1.00
30_F	33_F	1.313	1.00
78_L	83_Y	1.284	1.00
83_Y	98_V	1.270	1.00
43_E	47_E	1.252	1.00
13_S	47_E	1.230	1.00
8_P	19_I	1.202	1.00
100_A	103_K	1.180	1.00
67_T	70_Q	1.170	1.00
53_K	60_E	1.147	1.00
82_S	85_Q	1.139	1.00
29_I	32_A	1.137	1.00
35_E	39_D	1.135	1.00
46_Q	49_K	1.132	1.00
77_L	86_V	1.086	1.00
28_T	31_S	1.084	1.00
74_A	100_A	1.079	1.00
85_Q	89_M	1.055	0.99
74_A	86_V	1.049	0.99
71_I	100_A	1.043	0.99
26_I	29_I	1.038	0.99
75_L	79_E	1.029	0.99
22_E	36_F	1.015	0.99
42_V	45_T	1.014	0.99
68_K	72_N	1.006	0.99
94_V	98_V	1.004	0.99
50_M	54_Q	1.002	0.99
74_A	90_T	1.000	0.99
70_Q	73_H	0.964	0.99
73_H	89_M	0.942	0.99
48_G	52_A	0.914	0.99
96_T	99_R	0.913	0.99
22_E	30_F	0.910	0.98
66_F	70_Q	0.898	0.98
33_F	36_F	0.894	0.98
83_Y	94_V	0.886	0.98
10_A	15_P	0.852	0.98
71_I	74_A	0.843	0.98
22_E	26_I	0.839	0.97
70_Q	90_T	0.837	0.97
73_H	77_L	0.830	0.97
25_L	28_T	0.829	0.97
78_L	97_L	0.819	0.97
71_I	103_K	0.815	0.97
85_Q	88_D	0.805	0.97
46_Q	50_M	0.796	0.96
66_F	71_I	0.794	0.96
95_S	99_R	0.792	0.96
25_L	33_F	0.774	0.96
22_E	25_L	0.767	0.96
54_Q	57_D	0.767	0.96
38_R	42_V	0.756	0.95
25_L	29_I	0.753	0.95
87_E	94_V	0.746	0.95
95_S	98_V	0.742	0.95
73_H	90_T	0.741	0.95
39_D	42_V	0.726	0.94
36_F	40_M	0.720	0.94
92_I	96_T	0.718	0.94
72_N	76_T	0.714	0.94
77_L	90_T	0.713	0.94
16_F	32_A	0.708	0.93
21_S	39_D	0.703	0.93
9_L	18_A	0.693	0.93
42_V	49_K	0.686	0.92
66_F	74_A	0.682	0.92
76_T	79_E	0.678	0.92
17_P	23_K	0.670	0.91
26_I	33_F	0.667	0.91
69_Q	85_Q	0.657	0.91
65_K	70_Q	0.647	0.90
68_K	71_I	0.647	0.90
20_Y	27_F	0.636	0.89
30_F	36_F	0.620	0.88
66_F	90_T	0.619	0.88
76_T	89_M	0.614	0.87
72_N	79_E	0.610	0.87
97_L	101_K	0.610	0.87
28_T	35_E	0.610	0.87
11_I	16_F	0.608	0.87
31_S	34_A	0.607	0.87
87_E	90_T	0.602	0.86
75_L	101_K	0.590	0.85
9_L	32_A	0.582	0.84
28_T	33_F	0.580	0.84
64_K	100_A	0.579	0.84
93_S	99_R	0.574	0.84
53_K	57_D	0.569	0.83
69_Q	73_H	0.569	0.83
71_I	75_L	0.569	0.83
82_S	86_V	0.566	0.83
7_N	16_F	0.563	0.82
10_A	17_P	0.560	0.82
83_Y	97_L	0.557	0.82
21_S	43_E	0.553	0.81
71_I	97_L	0.550	0.81
54_Q	103_K	0.545	0.80
14_K	41_I	0.543	0.80
9_L	15_P	0.542	0.80
29_I	33_F	0.538	0.80
8_P	18_A	0.532	0.79
75_L	103_K	0.528	0.78
49_K	58_F	0.527	0.78
64_K	103_K	0.522	0.78
53_K	58_F	0.520	0.77
87_E	92_I	0.520	0.77
66_F	96_T	0.517	0.77
18_A	23_K	0.517	0.77
16_F	27_F	0.513	0.76
75_L	100_A	0.512	0.76
41_I	46_Q	0.510	0.76
58_F	64_K	0.509	0.76
81_H	86_V	0.509	0.76
28_T	36_F	0.508	0.76
99_R	103_K	0.507	0.76
22_E	41_I	0.504	0.75
55_N	60_E	0.503	0.75
97_L	100_A	0.500	0.75

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
3uj3X	2	0.4234	99.9	0.392	Contact Map
1gdtA	2	0.9189	99.9	0.423	Contact Map
2r0qC	3	0.9369	99.8	0.468	Contact Map
3g13A	2	0.5495	99.5	0.608	Contact Map
4bqqA	2	0.9369	99.4	0.618	Contact Map
2lvsA	1	0.8288	99.3	0.643	Contact Map
3guvA	2	0.4775	99.3	0.643	Contact Map
2gm5A	4	0.4234	99.2	0.668	Contact Map
3vw4A	1	0.7568	99.1	0.68	Contact Map
3ilxA	2	0.4685	98.8	0.715	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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