OPENSEQ.org - RS5 - ECOLI GREMLIN

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RS5 - 30S ribosomal protein S5

UniProt:	P0A7W1	Sequence MAHIEKQAGELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRNMINVALNNGTLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNPINVVRATIDGLENMNSPEMVAAKRGKSVEEILGK	Download Alignment We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene:	EG10904
Length:	167 (160)
Sequences:	1364
Seq/Len:	8.53

RS5
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
12_Q	42_G	3.271	1.00
142_D	146_N	3.216	1.00
87_G	142_D	2.721	1.00
159_K	163_E	2.467	1.00
12_Q	117_V	2.426	1.00
24_T	31_F	2.422	1.00
41_D	45_R	2.332	1.00
100_S	124_L	2.298	1.00
58_A	61_Q	2.107	1.00
142_D	145_E	2.054	1.00
148_N	156_K	1.974	1.00
81_L	123_V	1.972	1.00
37_T	63_A	1.955	1.00
16_I	137_V	1.948	1.00
115_L	120_V	1.93	1.00
11_L	45_R	1.883	1.00
101_E	122_N	1.883	1.00
50_Y	134_I	1.864	1.00
84_P	98_P	1.859	1.00
48_F	138_R	1.783	1.00
81_L	96_M	1.766	1.00
45_R	71_M	1.745	1.00
25_V	30_I	1.739	1.00
81_L	147_M	1.739	1.00
149_S	152_M	1.731	1.00
15_L	18_V	1.726	1.00
76_L	120_V	1.689	1.00
82_Q	147_M	1.668	1.00
34_T	50_Y	1.607	1.00
38_V	114_V	1.596	1.00
45_R	73_N	1.538	1.00
111_M	125_A	1.513	1.00
115_L	123_V	1.498	1.00
88_V	93_R	1.485	1.00
72_I	145_E	1.456	0.99
85_V	146_N	1.43	0.99
24_T	29_R	1.424	0.99
110_A	136_V	1.416	0.99
103_T	124_L	1.407	0.99
64_M	68_R	1.395	0.99
87_G	92_S	1.362	0.99
127_A	136_V	1.349	0.99
43_N	76_L	1.338	0.99
19_N	34_T	1.322	0.99
159_K	164_I	1.294	0.98
86_K	93_R	1.293	0.98
92_S	127_A	1.287	0.98
33_F	56_V	1.268	0.98
9_G	45_R	1.265	0.98
154_A	161_V	1.227	0.98
151_E	155_A	1.22	0.97
10_E	43_N	1.209	0.97
35_A	56_V	1.208	0.97
48_F	141_I	1.207	0.97
148_N	153_V	1.195	0.97
160_S	163_E	1.19	0.97
84_P	97_Q	1.183	0.97
66_K	70_N	1.162	0.96
35_A	59_A	1.159	0.96
96_M	143_G	1.151	0.96
134_I	138_R	1.15	0.96
11_L	43_N	1.13	0.96
18_V	55_E	1.124	0.95
95_F	128_Y	1.113	0.95
48_F	137_V	1.099	0.95
61_Q	65_E	1.074	0.94
99_A	103_T	1.068	0.93
105_I	115_L	1.06	0.93
32_S	53_A	1.056	0.93
85_V	96_M	1.055	0.93
72_I	141_I	1.052	0.93
89_H	138_R	1.019	0.91
52_K	62_K	1.013	0.91
85_V	147_M	1.009	0.91
76_L	79_G	1.006	0.90
77_N	151_E	1.005	0.90

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
4kiyE	1	1	100	0.061	Contact Map	0.666
2vqeE	1	0.9701	100	0.095	Contact Map	0.775
3bbnE	1	0.994	100	0.1	Contact Map	0.663
1pkpA	1	0.8982	100	0.136	Contact Map	0.754
3j20F	1	1	100	0.141	Contact Map	0.675
3iz6E	1	1	100	0.181	Contact Map	0.048
3u5cC	1	1	100	0.182	Contact Map	0.717
3zeyP	1	1	100	0.185	Contact Map	0.561
4bpeE	1	1	100	0.197	Contact Map	0.713
4kzyC	1	1	100	0.2	Contact Map	0.652

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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