OPENSEQ.org - RL6 - ECOLI GREMLIN

May 4, 2021 - We are working on upgrading the webserver, some pages may not work.

RL6 - 50S ribosomal protein L6

UniProt:	P0AG55	Sequence MSRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVTEGFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKGVRYADEVVRTKEAKKK	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10869
Length:	177 (177)
Sequences:	2003
Seq/Len:	11.32

RL6
Paralog alert: 0.04 [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
73_N	77_I	3.609	1.00
77_I	81_E	3.549	1.00
27_K	32_E	3.05	1.00
124_E	134_K	2.781	1.00
117_L	123_A	2.664	1.00
84_T	134_K	2.662	1.00
163_R	169_V	2.577	1.00
44_K	53_G	2.551	1.00
107_L	151_Y	2.447	1.00
133_L	141_I	2.388	1.00
16_D	27_K	2.349	1.00
102_V	116_Q	2.325	1.00
102_V	114_D	2.158	1.00
143_Q	147_D	2.126	1.00
86_K	165_A	2.122	1.00
52_F	72_L	2.105	1.00
56_D	61_G	2.055	1.00
35_R	139_Q	1.973	1.00
25_T	32_E	1.971	1.00
107_L	162_V	1.961	1.00
135_G	141_I	1.95	1.00
115_H	151_Y	1.94	1.00
28_G	31_G	1.901	1.00
122_T	134_K	1.899	1.00
137_D	140_V	1.866	1.00
115_H	144_V	1.835	1.00
35_R	75_M	1.779	1.00
88_Q	166_D	1.772	1.00
90_V	163_R	1.758	1.00
98_V	125_C	1.747	1.00
45_H	50_L	1.712	1.00
25_T	34_T	1.709	1.00
173_E	176_K	1.644	1.00
127_T	130_E	1.595	1.00
23_V	36_T	1.588	1.00
98_V	117_L	1.587	1.00
101_N	119_A	1.542	1.00
86_K	132_V	1.536	1.00
19_I	24_I	1.514	1.00
99_K	104_N	1.506	1.00
19_I	45_H	1.49	1.00
40_A	61_G	1.472	1.00
121_I	144_V	1.453	1.00
23_V	34_T	1.452	1.00
104_N	114_D	1.423	1.00
54_P	65_A	1.418	1.00
113_V	151_Y	1.356	0.99
30_N	136_A	1.355	0.99
5_A	65_A	1.336	0.99
42_E	53_G	1.336	0.99
86_K	130_E	1.298	0.99
37_L	43_V	1.293	0.99
90_V	169_V	1.293	0.99
26_I	75_M	1.275	0.99
67_T	70_A	1.271	0.99
133_L	148_L	1.271	0.99
123_A	144_V	1.269	0.99
67_T	71_L	1.262	0.99
115_H	147_D	1.258	0.99
11_V	45_H	1.254	0.99
99_K	102_V	1.244	0.98
10_V	49_T	1.227	0.98
58_Y	61_G	1.224	0.98
120_G	140_V	1.219	0.98
126_P	132_V	1.209	0.98
109_F	113_V	1.208	0.98
163_R	171_T	1.194	0.98
24_I	72_L	1.193	0.98
35_R	71_L	1.189	0.98
64_Q	68_A	1.155	0.97
103_I	148_L	1.151	0.97
124_E	132_V	1.149	0.97
96_A	105_L	1.146	0.97
144_V	148_L	1.143	0.97
21_G	36_T	1.141	0.97
11_V	17_V	1.123	0.97
139_Q	143_Q	1.094	0.96
54_P	62_W	1.089	0.96
117_L	144_V	1.081	0.95
150_A	153_R	1.08	0.95
81_E	84_T	1.071	0.95
69_R	73_N	1.065	0.95
156_P	171_T	1.029	0.94
4_V	70_A	1.028	0.94
22_Q	36_T	1.025	0.93
44_K	51_T	1.022	0.93
109_F	151_Y	1.017	0.93

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
4kixG	1	1	100	-0.012	Contact Map	0.624
2zjrE	1	1	100	-0.002	Contact Map	0.605
3v2dH	1	1	100	0	Contact Map	0.805
1nkwE	1	1	100	0	Contact Map	0.026
3bboI	1	1	100	0.001	Contact Map	0.59
1rl6A	1	0.9944	100	0.019	Contact Map	0.802
3j21F	1	0.9774	100	0.189	Contact Map	0.638
1vq8E	1	0.9548	100	0.198	Contact Map	0.647
3j39H	1	0.9831	100	0.233	Contact Map	0.517
3zf7y	1	0.9831	100	0.235	Contact Map	0.601

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.

Page generated in 0.0388 seconds.