OPENSEQ.org - YTFA - ECOLI GREMLIN

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YTFA - Putative uncharacterized protein YtfA

UniProt:	P39309	Sequence MHSENQSKGVHYAKSQRLLEINHAHLQLMESLLDEGKKHNIFKPDIDPLQVNINIAALGGYYLINQHTLGLVYHISMVSPQALEARRKVIKETILSWLLVDPSSTAHE	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG12501
Length:	108 (100)
Sequences:	263
Seq/Len:	2.63

YTFA
Paralog alert: 0.17 [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
46_I	51_V	2.351	1.00
9_G	96_S	2.083	1.00
1_M	69_L	2.042	1.00
1_M	52_N	2.004	0.99
52_N	69_L	1.881	0.99
61_Y	77_M	1.864	0.99
30_E	34_D	1.756	0.98
3_S	6_Q	1.655	0.97
6_Q	60_G	1.532	0.95
3_S	7_S	1.523	0.95
93_T	97_W	1.512	0.95
51_V	95_L	1.465	0.93
34_D	38_K	1.428	0.92
37_K	45_D	1.423	0.92
47_D	75_I	1.386	0.91
16_Q	32_L	1.319	0.88
54_N	86_R	1.315	0.87
2_H	60_G	1.314	0.87
26_L	99_L	1.307	0.87
32_L	79_S	1.306	0.87
81_Q	84_E	1.266	0.85
31_S	38_K	1.261	0.84
16_Q	41_I	1.26	0.84
50_Q	89_V	1.259	0.84
17_R	20_E	1.255	0.84
11_H	14_K	1.243	0.83
19_L	96_S	1.238	0.83
46_I	98_L	1.211	0.81
52_N	73_Y	1.205	0.80
42_F	95_L	1.193	0.80
33_L	37_K	1.172	0.78
53_I	69_L	1.137	0.75
53_I	57_A	1.122	0.73
30_E	48_P	1.12	0.73
29_M	37_K	1.118	0.73
56_A	69_L	1.118	0.73
13_A	80_P	1.111	0.72
5_N	68_T	1.101	0.71
66_Q	76_S	1.094	0.71
24_A	93_T	1.088	0.70
38_K	74_H	1.085	0.70
84_E	88_K	1.083	0.70
28_L	45_D	1.049	0.66
12_Y	61_Y	1.04	0.65
27_Q	30_E	1.034	0.64
37_K	46_I	1.032	0.64
9_G	19_L	1.027	0.64
64_I	69_L	1.001	0.61

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
3npiA	2	0.9907	98.5	0.723	Contact Map	0.365
2qtqA	4	0.9259	97.7	0.774	Contact Map	0.432
2pz9A	1	0.9537	97.7	0.778	Contact Map	0.298
3gziA	1	0.9815	97.2	0.797	Contact Map	0.216
2d6yA	2	0.9444	97.1	0.799	Contact Map	0.362
1pb6A	4	0.9074	97	0.802	Contact Map	0.329
4jykA	2	0.9074	97	0.802	Contact Map	0.324
2qwtA	1	0.8333	95.7	0.826	Contact Map	0.342
3s5rA	2	0.963	95.7	0.826	Contact Map	0.285
2o7tA	1	0.8796	95.4	0.83	Contact Map	0.366

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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