OPENSEQ.org - YJFY - ECOLI GREMLIN

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YJFY - Uncharacterized protein YjfY

UniProt:	P0AF86	Sequence MFSRVLALLAVLLLSANTWAAIEINNHQARNMDDVQSLGVIYINHNFATESEARQALNEETDAQGATYYHVILMREPGSNGNMHASADIYR	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG12499
Length:	91 (90)
Sequences:	371
Seq/Len:	4.12

YJFY
Paralog alert: 0.97 [within 20: 0.46] - ratio of genomes with paralogs
Cluster includes: BHSA MCBA YAHO YBIJ YHCN YJFN YJFY

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
49_T	52_E	2.383	1.00
59_E	63_A	2.17	1.00
66_A	89_I	1.909	1.00
9_L	16_A	1.822	1.00
22_I	26_N	1.816	1.00
37_S	88_D	1.655	0.99
79_S	83_M	1.574	0.98
18_T	22_I	1.529	0.98
58_N	62_D	1.471	0.97
50_E	85_A	1.459	0.97
49_T	56_A	1.451	0.97
43_I	53_A	1.384	0.96
25_N	28_Q	1.375	0.96
55_Q	59_E	1.358	0.95
2_F	6_L	1.329	0.94
59_E	62_D	1.328	0.94
5_V	8_L	1.327	0.94
36_Q	70_H	1.322	0.94
54_R	74_M	1.322	0.94
15_S	20_A	1.302	0.94
41_I	62_D	1.271	0.92
75_R	86_S	1.27	0.92
67_T	91_R	1.251	0.92
17_N	20_A	1.249	0.92
2_F	10_A	1.245	0.91
70_H	88_D	1.207	0.90
6_L	13_L	1.201	0.89
58_N	88_D	1.199	0.89
51_S	89_I	1.192	0.89
48_A	53_A	1.188	0.89
53_A	83_M	1.144	0.86
6_L	12_L	1.144	0.86
24_I	27_H	1.128	0.85
20_A	31_N	1.125	0.85
15_S	90_Y	1.11	0.84
40_V	75_R	1.091	0.82
53_A	77_P	1.076	0.81
13_L	55_Q	1.071	0.81
12_L	15_S	1.062	0.80
76_E	82_N	1.056	0.79
18_T	21_A	1.048	0.79
26_N	68_Y	1.047	0.79
74_M	77_P	1.037	0.78
9_L	13_L	1.034	0.77
16_A	22_I	1.032	0.77
28_Q	33_D	1.021	0.76
67_T	79_S	1.02	0.76
44_N	82_N	1.012	0.75
53_A	79_S	1.007	0.75
10_A	15_S	1.002	0.74

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
2nocA	1	0.9341	99.9	0.161	Contact Map	0.347
2jnaA	2	0.9451	99.9	0.163	Contact Map	0.323
2m2jA	1	0.989	99.9	0.257	Contact Map	0.337
4evuA	2	0.7912	99.8	0.317	Contact Map	0.453
2ma4A	1	0.7033	99.7	0.348	Contact Map	0.362
2qgmA	1	0.8352	48.7	0.873	Contact Map	0.029
3b55A	1	0.8242	33	0.884	Contact Map	0.042
4kzkA	1	0.9011	24	0.892	Contact Map	0.307
4k0jA	6	0.9451	21.2	0.894	Contact Map	0.567
3layA	10	0.8462	10.8	0.908	Contact Map	0.187

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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