OPENSEQ.org - RL5 - ECOLI GREMLIN

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RL5 - 50S ribosomal protein L5

UniProt:	P62399	Sequence MAKLHDYYKDEVVKKLMTEFNYNSVMQVPRVEKITLNMGVGEAIADKKLLDNAAADLAAISGQKPLITKARKSVAGFKIRQGYPIGCKVTLRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVRGLDITITTTAKSDEEGRALLAAFDFPFRK	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10868
Length:	179 (179)
Sequences:	1319
Seq/Len:	7.37

RL5
Paralog alert: 0.01 [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
3_K	101_E	4.601	1.00
6_D	10_D	4.338	1.00
36_L	61_S	3.809	1.00
19_E	168_A	3.142	1.00
7_Y	11_E	2.911	1.00
129_S	155_T	2.828	1.00
108_V	111_I	2.812	1.00
34_I	100_F	2.792	1.00
13_V	28_V	2.698	1.00
103_L	130_M	2.463	1.00
31_V	156_I	2.422	1.00
132_V	137_I	2.415	1.00
22_Y	165_E	2.182	1.00
57_L	87_C	2.181	1.00
15_K	18_T	2.165	1.00
171_A	179_K	2.147	1.00
27_Q	161_K	2.086	1.00
7_Y	12_V	2.085	1.00
142_D	145_K	2.077	1.00
58_A	64_K	2.024	1.00
17_M	28_V	2.005	1.00
117_L	175_F	1.997	1.00
35_T	157_T	1.948	1.00
97_W	173_F	1.867	1.00
168_A	172_A	1.845	1.00
5_H	9_K	1.816	1.00
58_A	65_P	1.783	1.00
101_E	105_T	1.768	1.00
124_G	163_D	1.766	1.00
12_V	173_F	1.713	1.00
162_S	165_E	1.616	1.00
14_K	18_T	1.586	1.00
19_E	164_E	1.572	1.00
100_F	156_I	1.55	1.00
98_E	102_R	1.53	1.00
40_V	53_A	1.522	0.99
119_A	179_K	1.517	0.99
15_K	172_A	1.513	0.99
88_K	153_D	1.494	0.99
22_Y	162_S	1.485	0.99
11_E	15_K	1.452	0.99
168_A	171_A	1.407	0.99
36_L	152_L	1.37	0.99
167_R	171_A	1.363	0.99
69_K	84_P	1.361	0.99
34_I	173_F	1.359	0.99
79_I	85_I	1.353	0.99
38_M	53_A	1.34	0.98
70_A	73_S	1.333	0.98
70_A	82_G	1.327	0.98
119_A	167_R	1.32	0.98
9_K	13_V	1.291	0.98
17_M	25_V	1.285	0.98
2_A	98_E	1.284	0.98
100_F	104_I	1.28	0.98
136_I	149_V	1.271	0.98
31_V	34_I	1.269	0.97
68_T	88_K	1.259	0.97
164_E	167_R	1.252	0.97
44_I	85_I	1.245	0.97
32_E	159_T	1.224	0.97
55_A	59_A	1.217	0.97
38_M	57_L	1.216	0.97
73_S	81_Q	1.2	0.96
15_K	19_E	1.172	0.95
8_Y	13_V	1.168	0.95
117_L	130_M	1.164	0.95
147_D	150_R	1.159	0.95
14_K	17_M	1.156	0.95
108_V	117_L	1.154	0.95
54_A	67_I	1.15	0.95
136_I	143_Y	1.146	0.95
52_N	147_D	1.142	0.95
34_I	104_I	1.141	0.95
31_V	100_F	1.127	0.94
25_V	28_V	1.1	0.93
54_A	58_A	1.092	0.93
5_H	94_E	1.09	0.93
123_D	127_N	1.078	0.92
2_A	94_E	1.054	0.91
40_V	50_L	1.053	0.91
61_S	66_L	1.052	0.91
19_E	172_A	1.049	0.91
1_M	6_D	1.028	0.89
121_S	153_D	1.024	0.89
158_T	166_G	1.01	0.88
45_A	76_G	1.006	0.88
50_L	87_C	1	0.88

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
4kixF	1	1	100	0.049	Contact Map	0.697
3bboH	1	1	100	0.052	Contact Map	0.579
1iq4A	2	1	100	0.053	Contact Map	0.795
1mjiA	2	1	100	0.058	Contact Map	0.788
3j21E	1	0.9162	100	0.298	Contact Map	0.473
1vq8D	1	0.8715	100	0.305	Contact Map	0.565
3iz5E	1	0.8603	100	0.33	Contact Map	0.408
3j3bJ	1	0.8659	100	0.331	Contact Map	0.719
3zf7L	1	0.8883	100	0.339	Contact Map	0.601
4a17D	1	0.8492	100	0.344	Contact Map	0.596

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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