OPENSEQ.org - RIMI - ECOLI GREMLIN

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RIMI - Ribosomal-protein-alanine acetyltransferase

UniProt:	P0A944	Sequence MNTISSLETTDLPAAYHIEQRAHAFPWSEKTFASNQGERYLNFQLTQNGKMAAFAITQVVLDEATLFNIAVDPDYQRQGLGRALLEHLIDELEKRGVATLWLEVRASNAAAIALYESLGFNEATIRRNYYPTTDGREDAIIMALPISM	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10850
Length:	148 (145)
Sequences:	13758
Seq/Len:	94.88

RIMI
Paralog alert: 0.88 [within 20: 0.22] - ratio of genomes with paralogs
Cluster includes: ATDA PHNO RIMI RIMJ RIML YAFP YEDL YHHY YIAC YJAB YJGM YNCA YPEA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Scaled Score	Prob
5_S	46_T	3.414	1.00
5_S	11_D	2.639	1.00
21_R	72_D	2.624	1.00
82_R	118_L	2.52	1.00
89_I	120_F	2.467	1.00
55_A	88_L	2.295	1.00
45_L	80_L	2.222	1.00
82_R	117_S	2.219	1.00
87_H	90_D	2.187	1.00
112_I	116_E	2.139	1.00
89_I	144_L	2.107	1.00
52_A	75_Y	2.1	1.00
116_E	122_E	1.963	1.00
43_F	87_H	1.945	1.00
44_Q	51_M	1.876	1.00
99_T	143_A	1.86	1.00
86_E	118_L	1.791	1.00
89_I	100_L	1.746	1.00
122_E	125_I	1.746	1.00
47_Q	52_A	1.733	1.00
7_L	15_A	1.715	1.00
85_L	118_L	1.713	1.00
113_A	116_E	1.697	1.00
75_Y	78_Q	1.674	1.00
14_A	17_H	1.638	1.00
91_E	95_R	1.637	1.00
91_E	94_K	1.635	1.00
53_A	71_V	1.586	1.00
102_L	115_Y	1.583	1.00
47_Q	75_Y	1.549	1.00
13_P	29_E	1.533	1.00
87_H	91_E	1.518	1.00
82_R	86_E	1.494	1.00
122_E	140_I	1.472	1.00
57_T	88_L	1.469	1.00
123_A	143_A	1.466	1.00
14_A	51_M	1.422	1.00
47_Q	78_Q	1.4	0.99
104_V	108_N	1.397	0.99
125_I	138_D	1.387	0.99
112_I	122_E	1.381	0.99
50_K	72_D	1.373	0.99
109_A	113_A	1.364	0.99
50_K	74_D	1.28	0.99
46_T	49_G	1.272	0.99
9_T	33_A	1.271	0.99
106_A	138_D	1.263	0.99
64_A	92_L	1.263	0.99
76_Q	110_A	1.226	0.98
3_T	46_T	1.2	0.98
17_H	21_R	1.195	0.98
111_A	115_Y	1.19	0.98
21_R	73_P	1.164	0.97
106_A	125_I	1.153	0.97
42_N	56_I	1.148	0.97
17_H	72_D	1.14	0.97
71_V	80_L	1.128	0.97
46_T	51_M	1.128	0.97
14_A	18_I	1.125	0.97
92_L	100_L	1.114	0.96
7_L	42_N	1.11	0.96
107_S	137_E	1.108	0.96
29_E	33_A	1.108	0.96
90_D	94_K	1.106	0.96
57_T	92_L	1.098	0.96
85_L	120_F	1.077	0.95
43_F	91_E	1.076	0.95
79_G	82_R	1.065	0.95
72_D	75_Y	1.065	0.95
55_A	84_L	1.057	0.95
22_A	70_A	1.022	0.93
109_A	112_I	1.019	0.93
14_A	50_K	1.015	0.93
83_A	87_H	1.006	0.93

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling

HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:

Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 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	P(%)	HHΔ		Acc
2cntA	4	1	99.9	0.173	Contact Map	0.761
3dr6A	3	0.9932	99.9	0.188	Contact Map	0.853
2j8mA	2	0.9932	99.9	0.195	Contact Map	0.742
2ob0A	3	0.9865	99.9	0.2	Contact Map	0.801
4kvxA	2	0.973	99.9	0.221	Contact Map	0.743
2x7bA	1	0.9662	99.9	0.224	Contact Map	0.812
2reeA	2	1	99.9	0.227	Contact Map	0.774
3kkwA	1	0.9865	99.9	0.227	Contact Map	0.687
3g8wA	4	0.9797	99.9	0.229	Contact Map	0.825
4l8aA	1	0.9865	99.9	0.229	Contact Map	0.698

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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