YPEA - ECOLI - GREMLIN Contacts

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YPEA - Acetyltransferase YpeA

UniProt:	P76539	Sequences: MEIRVFRQEDFEEVITLWERCDLLRPWNDPEMDIERKMNHDVSLFLVAEVNGDVVGTVMGGYDGHRGSAYYLGVHPEFRGRGIANALLNRLEKKLIARGCPKIQINVPEDNDMVLGMYERLGYEHADVLSLGKRLIEDEEY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14168
Length:	141 (128)
Sequences:	10051 (8034)
Seq/√Len:	710.1

ECOLI - YPEA PHNO RIMI YJGM YEDL MNAT YJAB YIAC YAFP YJHQ YHBS YHHY ELAA
BACSU - YQJY YHFO PAIA YHDJ RIMI YTMI YUAI YSNE YWNH YBFA YESJ YYAR YDGE YYCN SPSD BLTD YBBJ YOBR YVBK YITH YYBD YRKN YJCF YYAT YITI YXBD
HALSA - Q9HQD2 Q9HMF0 Q9HMI8 Q9HSL3 Q9HRK6 Q9HP19
SULSO - Y209 Q7LXZ8 Q97UX1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
4_R	49_E	3.747	1.00
20_R	75_H	3.023	1.00
92_E	123_Y	3.005	1.00
58_V	91_L	2.450	1.00
85_N	121_L	2.406	1.00
48_A	83_I	2.337	1.00
4_R	10_D	2.203	1.00
85_N	120_R	2.187	1.00
46_L	90_R	2.138	1.00
50_V	78_F	2.030	1.00
47_V	54_V	2.017	1.00
89_N	121_L	2.012	1.00
55_V	78_F	1.951	1.00
90_R	93_K	1.867	1.00
94_K	98_R	1.805	1.00
13_E	16_T	1.800	1.00
92_E	103_I	1.797	1.00
105_I	118_Y	1.759	1.00
67_G	95_L	1.728	1.00
94_K	97_A	1.726	1.00
88_L	121_L	1.671	1.00
119_E	125_H	1.616	1.00
78_F	81_R	1.608	1.00
50_V	55_V	1.591	1.00
115_L	119_E	1.547	1.00
60_G	91_L	1.535	1.00
50_V	81_R	1.524	1.00
6_F	14_V	1.506	1.00
116_G	119_E	1.464	1.00
16_T	20_R	1.459	1.00
21_C	73_G	1.437	1.00
62_Y	100_C	1.415	1.00
49_E	54_V	1.414	1.00
44_L	94_K	1.410	1.00
125_H	128_V	1.409	1.00
30_P	33_D	1.401	1.00
79_R	113_M	1.376	1.00
6_F	47_V	1.359	1.00
85_N	89_N	1.346	1.00
53_D	77_E	1.317	1.00
107_V	111_N	1.275	1.00
56_G	74_V	1.275	1.00
90_R	94_K	1.268	1.00
109_E	128_V	1.242	1.00
115_L	125_H	1.237	1.00
69_A	88_L	1.234	1.00
114_V	118_Y	1.222	1.00
15_I	19_E	1.208	1.00
45_F	59_M	1.206	1.00
49_E	52_G	1.182	1.00
53_D	75_H	1.176	1.00
20_R	76_P	1.170	1.00
46_L	94_K	1.152	1.00
13_E	54_V	1.146	1.00
20_R	77_E	1.135	1.00
10_D	49_E	1.126	1.00
88_L	118_Y	1.119	1.00
60_G	95_L	1.113	1.00
66_R	104_Q	1.099	1.00
12_E	31_E	1.095	1.00
112_D	116_G	1.093	1.00
82_G	85_N	1.084	1.00
18_W	57_T	1.054	1.00
95_L	103_I	1.035	1.00
22_D	25_R	1.028	1.00
88_L	117_M	1.025	1.00
50_V	53_D	1.022	1.00
17_L	21_C	1.015	1.00
93_K	97_A	1.006	1.00
44_L	98_R	1.004	1.00
58_V	87_L	0.986	1.00
16_T	75_H	0.983	1.00
75_H	78_F	0.980	1.00
35_E	39_N	0.974	1.00
67_G	100_C	0.970	1.00
74_V	83_I	0.967	1.00
3_I	46_L	0.966	1.00
112_D	115_L	0.956	1.00
17_L	54_V	0.955	1.00
68_S	104_Q	0.948	1.00
72_L	118_Y	0.932	1.00
14_V	57_T	0.931	1.00
111_N	114_V	0.922	1.00
31_E	35_E	0.919	1.00
22_D	26_P	0.903	1.00
34_I	38_M	0.896	1.00
59_M	70_Y	0.858	1.00
32_M	36_R	0.855	1.00
89_N	93_K	0.855	1.00
11_F	15_I	0.852	1.00
53_D	78_F	0.839	1.00
56_G	87_L	0.839	1.00
3_I	90_R	0.823	1.00
92_E	121_L	0.818	1.00
117_M	121_L	0.817	1.00
8_Q	35_E	0.816	1.00
13_E	53_D	0.811	1.00
105_I	114_V	0.807	1.00
17_L	75_H	0.806	1.00
60_G	94_K	0.806	1.00
72_L	88_L	0.804	1.00
8_Q	39_N	0.799	1.00
61_G	70_Y	0.798	1.00
6_F	11_F	0.787	1.00
107_V	114_V	0.785	1.00
12_E	16_T	0.776	1.00
104_Q	126_A	0.773	1.00
58_V	69_A	0.769	1.00
107_V	115_L	0.769	1.00
95_L	100_C	0.768	1.00
21_C	79_R	0.767	1.00
66_R	102_K	0.767	1.00
55_V	83_I	0.748	1.00
45_F	49_E	0.744	1.00
33_D	36_R	0.735	1.00
62_Y	98_R	0.733	1.00
33_D	37_K	0.729	1.00
92_E	96_I	0.721	1.00
72_L	105_I	0.708	1.00
80_G	113_M	0.705	1.00
6_F	45_F	0.700	1.00
34_I	37_K	0.695	1.00
16_T	53_D	0.690	1.00
69_A	105_I	0.689	1.00
36_R	40_H	0.683	1.00
5_V	46_L	0.682	1.00
93_K	96_I	0.673	1.00
44_L	60_G	0.670	1.00
25_R	28_N	0.669	1.00
113_M	116_G	0.669	1.00
103_I	123_Y	0.668	1.00
56_G	83_I	0.666	1.00
69_A	123_Y	0.656	1.00
48_A	56_G	0.655	1.00
84_A	117_M	0.650	1.00
32_M	35_E	0.643	1.00
30_P	34_I	0.638	1.00
7_R	10_D	0.632	1.00
68_S	106_N	0.629	1.00
57_T	73_G	0.628	1.00
83_I	86_A	0.623	1.00
86_A	89_N	0.623	1.00
63_D	66_R	0.622	1.00
24_L	28_N	0.621	1.00
63_D	68_S	0.619	1.00
114_V	117_M	0.614	1.00
18_W	34_I	0.610	1.00
33_D	38_M	0.610	1.00
62_Y	67_G	0.599	1.00
5_V	44_L	0.595	1.00
13_E	17_L	0.593	1.00
37_K	40_H	0.593	1.00
4_R	7_R	0.593	1.00
23_L	26_P	0.591	1.00
105_I	123_Y	0.590	1.00
3_I	86_A	0.589	1.00
17_L	73_G	0.588	1.00
18_W	73_G	0.584	1.00
30_P	38_M	0.584	1.00
8_Q	11_F	0.583	1.00
72_L	114_V	0.580	1.00
22_D	73_G	0.579	1.00
22_D	28_N	0.578	1.00
18_W	71_Y	0.577	1.00
4_R	47_V	0.574	1.00
48_A	55_V	0.571	1.00
71_Y	108_P	0.564	1.00
78_F	83_I	0.556	1.00
74_V	84_A	0.556	1.00
24_L	76_P	0.552	1.00
89_N	92_E	0.551	1.00
24_L	27_W	0.551	1.00
107_V	118_Y	0.551	1.00
15_I	31_E	0.549	1.00
13_E	75_H	0.548	1.00
23_L	28_N	0.544	1.00
21_C	76_P	0.537	1.00
80_G	120_R	0.533	1.00
5_V	94_K	0.529	1.00
37_K	59_M	0.529	1.00
102_K	126_A	0.524	1.00
14_V	18_W	0.522	1.00
59_M	71_Y	0.520	1.00
72_L	87_L	0.520	1.00
48_A	87_L	0.518	1.00
84_A	118_Y	0.516	1.00
16_T	19_E	0.514	1.00
29_D	37_K	0.512	1.00
116_G	120_R	0.512	1.00
12_E	15_I	0.510	0.99
111_N	117_M	0.505	0.99
57_T	111_N	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
1s3zA	2	0.9574	99.9	0.277	Contact Map
4qusA	5	1	99.9	0.281	Contact Map
3fynA	2	0.9433	99.8	0.296	Contact Map
3fixA	2	0.9574	99.8	0.32	Contact Map
3dr6A	2	1	99.8	0.321	Contact Map
2j8mA	2	1	99.8	0.322	Contact Map
4evyA	2	0.9574	99.8	0.324	Contact Map
3zj0A	1	0.9645	99.8	0.325	Contact Map
1p0hA	1	0.9433	99.8	0.326	Contact Map
4kvxA	1	0.9362	99.8	0.328	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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