OPENSEQ.org - YIAL - ECOLI GREMLIN

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YIAL - Protein YiaL

UniProt:	P37673	Sequence MIFGHIAQPNPCRLPAAIEKALDFLRATDFNALEPGVVEIDGKNIYTQIIDLTTREAVVNRPEVHRRYIDIQFLAWGEEKIGIAIDTGNNKVSESLLEQRNIIFYHDSEHESFIEMIPGSYAIFFPQDVHRPGCIMQTASEIRKIVVKVALTALN	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG12280
Length:	155 (154)
Sequences:	582
Seq/Len:	3.78

YIAL
Paralog alert: 0.62 [within 20: 0.07] - ratio of genomes with paralogs
Cluster includes: TABA YHCH YIAL

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
44_N	150_A	2.686	1.00
41_D	44_N	2.548	1.00
46_Y	68_Y	2.471	1.00
4_G	8_Q	2.252	1.00
51_D	143_R	2.085	1.00
20_K	41_D	1.963	1.00
53_T	141_E	1.919	1.00
50_I	146_V	1.881	1.00
74_L	118_P	1.876	1.00
5_H	120_S	1.856	1.00
55_R	60_N	1.856	1.00
72_Q	124_F	1.814	0.99
40_I	47_T	1.804	0.99
81_I	116_M	1.766	0.99
52_L	142_I	1.752	0.99
4_G	12_C	1.71	0.99
35_P	51_D	1.698	0.99
23_D	27_A	1.67	0.99
64_V	128_D	1.669	0.99
64_V	103_I	1.631	0.99
71_I	149_V	1.612	0.98
39_E	43_K	1.611	0.98
21_A	147_V	1.588	0.98
55_R	59_V	1.579	0.98
131_R	134_C	1.539	0.98
38_V	49_I	1.52	0.98
29_D	32_A	1.484	0.97
34_E	38_V	1.461	0.97
47_T	145_I	1.459	0.97
60_N	133_G	1.441	0.96
71_I	123_I	1.429	0.96
69_I	125_F	1.425	0.96
104_F	132_P	1.394	0.95
54_T	139_A	1.39	0.95
78_E	140_S	1.385	0.95
18_I	22_L	1.365	0.95
135_I	139_A	1.349	0.94
82_G	113_F	1.344	0.94
67_R	150_A	1.334	0.94
78_E	117_I	1.331	0.94
80_K	115_E	1.323	0.93
42_G	68_Y	1.31	0.93
9_P	145_I	1.268	0.91
54_T	81_I	1.253	0.91
115_E	136_M	1.244	0.90
75_A	145_I	1.243	0.90
19_E	23_D	1.242	0.90
53_T	139_A	1.24	0.90
105_Y	128_D	1.221	0.89
15_P	18_I	1.216	0.89
4_G	121_Y	1.215	0.89
9_P	22_L	1.212	0.89
61_R	104_F	1.207	0.88
35_P	38_V	1.203	0.88
72_Q	81_I	1.193	0.87
49_I	145_I	1.169	0.86
56_E	59_V	1.151	0.85
52_L	133_G	1.145	0.84
37_V	43_K	1.131	0.83
72_Q	132_P	1.117	0.82
41_D	46_Y	1.112	0.82
2_I	125_F	1.104	0.81
66_R	86_D	1.099	0.81
64_V	129_V	1.09	0.80
116_M	122_A	1.074	0.79
72_Q	146_V	1.062	0.78
25_L	75_A	1.053	0.77
62_P	111_E	1.051	0.77
37_V	71_I	1.038	0.75
100_R	143_R	1.035	0.75
28_T	33_L	1.034	0.75
38_V	54_T	1.032	0.75
18_I	149_V	1.032	0.75
17_A	22_L	1.031	0.75
22_L	73_F	1.026	0.74
97_L	100_R	1.024	0.74
62_P	129_V	1.009	0.72

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
1s4cA	4	0.9871	100	0.033	Contact Map	0.734
3gbgA	1	0.5871	27.1	0.933	Contact Map	0.646
2gu9A	2	0.6387	19.9	0.937	Contact Map	0.542
4i4aA	2	0.729	18.8	0.938	Contact Map	0.661
2oa2A	1	0.8258	15.7	0.94	Contact Map	0.586
1o4tA	2	0.7742	13.9	0.941	Contact Map	0.535
2j9iA	12	0.4323	10.1	0.945	Contact Map	0.139
1v70A	1	0.6774	9.4	0.946	Contact Map	0.615
4c92G	1	0.4452	8.6	0.947	Contact Map	0
3cewA	4	0.6774	8	0.947	Contact Map	0.728

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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