OPENSEQ.org - SFMF - ECOLI GREMLIN

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SFMF - Fimbrial-like protein SfmF

UniProt:	P38052	Sequence MRRVLFSCFCGLLWSSSGWAVDPLGTININLHGNVVDFSCTVNTADIDKTVDLGRWPTTQLLNAGDTTALVPFSLRLEGCPPGSVAILFTGTPASDTNLLALDDPAMAQTVAIELRNSDRSRLALGEASPTEEVDANGNVTLNFFANYRALASGVRPGVAKADAIFMINYN	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG12388
Length:	171 (150)
Sequences:	1513
Seq/Len:	10.09

SFMF
Paralog alert: 0.95 [within 20: 0.78] - ratio of genomes with paralogs
Cluster includes: ELFA FIMA1 FIMF FIMG FIMI SFMA SFMF YADN YBGD YCBU YCBV YDER YDES YFCP YFCV YGIL YRAH

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
113_I	146_A	3.256	1.00
109_Q	156_R	2.842	1.00
85_V	168_I	2.794	1.00
114_E	147_N	2.764	1.00
63_N	66_D	2.735	1.00
114_E	149_R	2.733	1.00
148_Y	160_A	2.39	1.00
74_S	141_T	2.379	1.00
43_N	78_E	2.341	1.00
116_R	147_N	2.312	1.00
113_I	162_A	2.23	1.00
99_L	112_A	2.201	1.00
41_T	79_G	2.188	1.00
110_T	155_V	2.084	1.00
117_N	121_S	2.025	1.00
43_N	76_R	1.961	1.00
43_N	46_D	1.901	1.00
102_L	160_A	1.891	1.00
62_L	66_D	1.837	1.00
56_W	68_T	1.751	1.00
53_L	160_A	1.734	1.00
100_L	125_L	1.658	1.00
100_L	164_A	1.638	1.00
87_I	142_L	1.628	1.00
53_L	113_I	1.605	1.00
37_D	58_T	1.56	1.00
74_S	143_N	1.53	1.00
114_E	122_R	1.53	1.00
93_P	98_N	1.52	1.00
91_G	100_L	1.498	1.00
76_R	141_T	1.482	1.00
99_L	149_R	1.438	1.00
61_L	150_A	1.426	1.00
100_L	162_A	1.402	0.99
72_P	145_F	1.369	0.99
111_V	148_Y	1.362	0.99
46_D	76_R	1.324	0.99
46_D	49_K	1.322	0.99
49_K	75_L	1.283	0.99
120_R	145_F	1.282	0.99
150_A	155_V	1.262	0.99
110_T	152_A	1.259	0.99
54_G	69_A	1.253	0.99
41_T	78_E	1.252	0.99
107_M	159_V	1.249	0.99
94_A	112_A	1.21	0.98
23_P	26_T	1.191	0.98
108_A	111_V	1.174	0.98
67_T	114_E	1.168	0.97
34_N	55_R	1.145	0.97
61_L	155_V	1.144	0.97
124_A	127_E	1.142	0.97
67_T	149_R	1.141	0.97
54_G	160_A	1.139	0.97
70_L	147_N	1.13	0.97
56_W	148_Y	1.123	0.97
67_T	147_N	1.12	0.96
73_F	115_L	1.106	0.96
30_N	163_D	1.098	0.96
49_K	166_F	1.075	0.95
72_P	143_N	1.072	0.95
61_L	111_V	1.063	0.95
63_N	150_A	1.035	0.94
64_A	110_T	1.03	0.94
61_L	151_L	1.03	0.94
93_P	112_A	1.028	0.94
53_L	148_Y	1.025	0.93
88_L	169_N	1.021	0.93
67_T	116_R	1.017	0.93
94_A	151_L	1.015	0.93
32_H	52_D	1	0.92

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
2jmrA	1	0.8655	100	0.235	Contact Map	0.654
2xg5B	1	0.9532	100	0.269	Contact Map	0.686
2jtyA	1	0.8772	100	0.27	Contact Map	0.715
2uy6B	2	0.8596	100	0.278	Contact Map	0.834
1pdkB	1	0.8363	100	0.295	Contact Map	0.665
3bwuF	1	0.7895	99.9	0.335	Contact Map	0.783
4dwhB	2	0.7836	99.9	0.356	Contact Map	0.736
2w07B	1	0.8012	99.9	0.371	Contact Map	0.691
3bfqG	1	0.7544	99.9	0.377	Contact Map	0.694
3jwnH	2	0.9064	99.9	0.422	Contact Map	0.743

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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