OPENSEQ.org - YADN - ECOLI GREMLIN

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YADN - Uncharacterized fimbrial-like protein YadN

UniProt:	P37050	Sequence MSKKLGFALSGLMLAMVAGTASADMDGGQLNISGLVVDNTCETRVDGGNKDGLILLQTATVGEIDAGVLNDTVGAKAKPFSITVDCSKANPNPGSTAKMTFGSVFFGNSKGTLNNDMSINNPSDGVNIALHNIDGSTIKQVQINNPGDVYTKALDATTKSAVYDFKASYVRAVADQTATAGYVKTNTAYTITYQ	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG12328
Length:	194 (180)
Sequences:	1140
Seq/Len:	6.33

YADN
Paralog alert: 0.92 [within 20: 0.72] - 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
128_I	167_A	3.891	1.00
97_A	191_I	3.445	1.00
129_A	170_V	2.727	1.00
68_V	71_D	2.598	1.00
112_T	127_N	2.544	1.00
169_Y	183_V	2.507	1.00
129_A	168_S	2.493	1.00
124_D	179_T	2.44	1.00
131_H	168_S	2.412	1.00
44_R	85_D	2.22	1.00
113_L	143_I	2.12	1.00
115_N	183_V	2.085	1.00
81_S	162_V	1.981	1.00
38_D	61_V	1.932	1.00
125_G	176_Q	1.924	1.00
129_A	140_Q	1.836	1.00
44_R	83_T	1.79	1.00
113_L	187_T	1.78	1.00
56_L	169_Y	1.757	1.00
134_D	139_K	1.73	1.00
64_I	171_R	1.701	1.00
128_I	185_T	1.647	1.00
72_T	168_S	1.618	1.00
56_L	183_V	1.616	1.00
125_G	178_A	1.609	1.00
99_M	163_Y	1.54	0.99
16_M	19_G	1.526	0.99
154_L	161_A	1.52	0.99
123_S	126_V	1.409	0.99
107_G	127_N	1.399	0.98
36_V	59_A	1.395	0.98
64_I	174_A	1.388	0.98
81_S	164_D	1.361	0.98
64_I	126_V	1.351	0.98
52_G	189_Y	1.336	0.98
35_L	58_T	1.329	0.98
113_L	128_I	1.309	0.97
171_R	174_A	1.292	0.97
72_T	131_H	1.283	0.97
79_P	166_K	1.274	0.97
72_T	129_A	1.273	0.97
52_G	82_I	1.269	0.97
132_N	139_K	1.245	0.96
17_V	21_A	1.211	0.95
49_N	83_T	1.202	0.95
18_A	21_A	1.199	0.95
175_D	178_A	1.194	0.95
79_P	164_D	1.192	0.95
40_T	161_A	1.192	0.95
65_D	71_D	1.181	0.94
80_F	130_L	1.174	0.94
56_L	129_A	1.17	0.94
36_V	178_A	1.166	0.94
112_T	129_A	1.146	0.93
15_A	18_A	1.14	0.93
59_A	73_V	1.137	0.93
42_E	85_D	1.132	0.92
113_L	185_T	1.131	0.92
74_G	77_A	1.131	0.92
14_L	24_D	1.118	0.92
10_S	14_L	1.118	0.92
126_V	169_Y	1.104	0.91
98_K	192_T	1.103	0.91
82_I	187_T	1.102	0.91
112_T	170_V	1.096	0.91
126_V	171_R	1.085	0.90
135_G	166_K	1.081	0.90
36_V	127_N	1.07	0.89
105_F	111_G	1.068	0.89
9_L	16_M	1.059	0.89
107_G	110_K	1.059	0.89
103_S	113_L	1.037	0.87
57_Q	74_G	1.03	0.87
181_G	193_Y	1.027	0.87
9_L	12_L	1.025	0.86
36_V	131_H	1.022	0.86
142_Q	145_N	1.015	0.86
31_N	186_N	1.011	0.85
43_T	101_F	1.005	0.85

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
2jtyA	1	0.8093	100	0.263	Contact Map	0.681
2jmrA	1	0.7887	100	0.265	Contact Map	0.577
2xg5B	1	0.866	100	0.274	Contact Map	0.657
2uy6B	2	0.799	100	0.296	Contact Map	0.795
1pdkB	1	0.768	100	0.303	Contact Map	0.622
4dwhB	2	0.7268	99.9	0.36	Contact Map	0.754
3bwuF	1	0.7216	99.9	0.368	Contact Map	0.747
2w07B	1	0.7474	99.9	0.385	Contact Map	0.601
3bfqG	1	0.6753	99.9	0.402	Contact Map	0.659
3jwnH	2	0.8144	99.9	0.445	Contact Map	0.656

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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