OPENSEQ.org - TRPR - ECOLI GREMLIN

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TRPR - Trp operon repressor

UniProt:	P0A881	Sequence MAQQSPYSAAMAEQRHQEWLRFVDLLKNAYQNDLHLPLLNLMLTPDEREALGTRVRIVEELLRGEMSQRELKNELGAGIATITRGSNSLKAAPVELRQWLEEVLLKSD	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG11029
Length:	108 (103)
Sequences:	132
Seq/Len:	1.28

TRPR
Paralog alert: 0.01 [within 20: 0.00] - ratio of genomes with paralogs

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
24_D	27_K	1.8	0.94
5_S	9_A	1.593	0.87
32_N	66_M	1.503	0.83
98_Q	102_E	1.495	0.83
5_S	107_S	1.454	0.80
38_L	96_L	1.444	0.79
11_M	107_S	1.419	0.78
11_M	16_H	1.409	0.77
12_A	62_L	1.345	0.72
7_Y	107_S	1.334	0.71
7_Y	11_M	1.319	0.70
39_L	45_P	1.311	0.69
19_W	87_N	1.307	0.69
67_S	81_T	1.298	0.68
53_T	88_S	1.271	0.66
38_L	95_E	1.254	0.64
6_P	107_S	1.241	0.63
76_G	97_R	1.238	0.63
43_L	105_L	1.225	0.62
8_S	14_Q	1.22	0.61
19_W	80_A	1.214	0.61
35_H	39_L	1.213	0.61
46_D	81_T	1.21	0.60
80_A	87_N	1.209	0.60
5_S	14_Q	1.206	0.60
70_E	103_V	1.198	0.59
13_E	17_Q	1.193	0.59
27_K	35_H	1.187	0.58
20_L	97_R	1.184	0.58
33_D	36_L	1.171	0.57
10_A	14_Q	1.169	0.56
15_R	30_Y	1.165	0.56
5_S	12_A	1.16	0.56
22_F	29_A	1.147	0.54
46_D	75_L	1.147	0.54
42_M	55_V	1.145	0.54
13_E	16_H	1.141	0.54
28_N	32_N	1.118	0.51
15_R	18_E	1.113	0.51
22_F	59_E	1.105	0.50
20_L	63_R	1.095	0.49
29_A	32_N	1.094	0.49
11_M	15_R	1.093	0.49
12_A	15_R	1.091	0.49
57_I	85_G	1.086	0.48
6_P	9_A	1.083	0.48
24_D	98_Q	1.083	0.48
22_F	70_E	1.08	0.48
70_E	96_L	1.078	0.47
23_V	101_E	1.078	0.47
5_S	11_M	1.07	0.47
26_L	105_L	1.067	0.46
41_L	63_R	1.061	0.46
51_L	55_V	1.06	0.46
5_S	8_S	1.049	0.45
9_A	107_S	1.037	0.43
29_A	73_N	1.033	0.43
6_P	11_M	1.028	0.43
60_E	63_R	1.009	0.41
10_A	107_S	1.007	0.41
6_P	15_R	1.007	0.41
11_M	14_Q	1.006	0.40
5_S	13_E	1.003	0.40
11_M	62_L	1.002	0.40

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
3frwA	8	0.9259	99.6	0.598	Contact Map	0.269
1jhgA	1	0.9352	99.3	0.665	Contact Map	0.179
3korA	4	0.9907	97.8	0.795	Contact Map	0.251
2w7nA	2	0.6111	93.9	0.86	Contact Map	0.047
3h5oA	2	0.4352	93.5	0.862	Contact Map
1rp3A	4	0.8611	93.4	0.863	Contact Map	0.368
1ku3A	1	0.6111	93	0.865	Contact Map	0.208
1dw9A	10	0.6389	93	0.865	Contact Map	0.075
3bilA	2	0.4722	92.5	0.867	Contact Map
4fcyA	2	0.8148	92.4	0.868	Contact Map	0.078

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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