RL18 - ECOLI - GREMLIN Contacts

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RL18 - 50S ribosomal protein L18

UniProt:	P0C018	Sequences: MDKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10879
Length:	117 (112)
Sequences:	2782 (1389)
Seq/√Len:	131.2

ECOLI - RL18
BACSU - RL18

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
88_K	116_Q	3.615	1.00
73_A	76_K	3.237	1.00
89_D	116_Q	3.211	1.00
68_K	105_A	2.974	1.00
11_A	95_S	2.849	1.00
83_L	88_K	2.652	1.00
67_N	70_A	2.559	1.00
80_E	84_E	2.481	1.00
76_K	80_E	2.390	1.00
39_V	82_A	2.277	1.00
55_E	81_R	2.207	1.00
26_L	37_A	2.189	1.00
72_A	112_E	2.136	1.00
77_A	81_R	1.944	1.00
79_A	113_A	1.925	1.00
41_A	44_G	1.871	1.00
35_I	106_L	1.822	1.00
69_D	72_A	1.708	1.00
51_A	77_A	1.664	1.00
110_A	115_L	1.592	1.00
64_Y	67_N	1.556	1.00
72_A	109_A	1.540	1.00
27_V	95_S	1.515	1.00
53_T	70_A	1.455	1.00
77_A	80_E	1.443	1.00
109_A	113_A	1.424	1.00
20_E	24_T	1.386	1.00
7_R	97_F	1.372	1.00
6_A	10_R	1.370	1.00
72_A	76_K	1.369	1.00
76_K	112_E	1.358	1.00
104_Q	108_D	1.283	1.00
8_I	11_A	1.263	1.00
27_V	40_I	1.249	1.00
19_Q	43_N	1.245	1.00
73_A	77_A	1.231	1.00
4_K	8_I	1.226	1.00
82_A	115_L	1.211	1.00
24_T	42_P	1.197	0.99
46_E	85_K	1.195	0.99
80_E	83_L	1.191	0.99
67_N	102_R	1.177	0.99
66_G	102_R	1.171	0.99
39_V	78_V	1.147	0.99
32_P	66_G	1.117	0.99
39_V	90_V	1.100	0.99
76_K	109_A	1.099	0.99
81_R	85_K	1.074	0.99
30_R	102_R	1.074	0.99
8_I	12_T	1.072	0.99
69_D	73_A	1.042	0.99
56_K	59_A	1.030	0.98
51_A	81_R	1.025	0.98
79_A	109_A	1.015	0.98
66_G	69_D	1.010	0.98
14_A	18_L	1.008	0.98
83_L	113_A	1.000	0.98
26_L	78_V	0.998	0.98
34_H	53_T	0.990	0.98
106_L	109_A	0.981	0.98
37_A	78_V	0.981	0.98
12_T	16_R	0.974	0.98
68_K	72_A	0.946	0.97
39_V	87_I	0.922	0.97
10_R	34_H	0.922	0.97
26_L	110_A	0.918	0.97
78_V	110_A	0.915	0.97
66_G	70_A	0.908	0.96
7_R	96_G	0.885	0.96
34_H	54_V	0.885	0.96
23_A	89_D	0.864	0.95
4_K	97_F	0.859	0.95
75_G	110_A	0.857	0.95
7_R	11_A	0.851	0.95
29_H	97_F	0.851	0.95
51_A	55_E	0.848	0.95
90_V	117_F	0.847	0.95
75_G	106_L	0.838	0.94
35_I	74_V	0.830	0.94
58_I	73_A	0.825	0.94
49_V	81_R	0.820	0.94
26_L	90_V	0.802	0.93
16_R	19_Q	0.795	0.93
83_L	116_Q	0.791	0.93
42_P	47_V	0.784	0.92
55_E	77_A	0.775	0.92
27_V	97_F	0.774	0.92
10_R	13_R	0.755	0.91
65_T	70_A	0.744	0.90
79_A	110_A	0.734	0.89
72_A	105_A	0.731	0.89
74_V	106_L	0.727	0.89
29_H	36_Y	0.724	0.89
11_A	96_G	0.722	0.89
48_L	87_I	0.718	0.88
11_A	21_L	0.710	0.88
57_A	80_E	0.709	0.88
20_E	42_P	0.705	0.88
75_G	109_A	0.704	0.87
16_R	20_E	0.700	0.87
11_A	27_V	0.688	0.86
51_A	74_V	0.685	0.86
9_R	12_T	0.680	0.86
76_K	113_A	0.679	0.86
42_P	45_S	0.674	0.85
64_Y	70_A	0.673	0.85
7_R	20_E	0.673	0.85
78_V	106_L	0.672	0.85
4_K	7_R	0.661	0.84
78_V	115_L	0.659	0.84
14_A	21_L	0.648	0.83
41_A	46_E	0.643	0.82
65_T	102_R	0.641	0.82
24_T	91_S	0.641	0.82
17_K	21_L	0.639	0.82
10_R	98_Q	0.638	0.82
3_K	36_Y	0.638	0.82
100_H	104_Q	0.633	0.81
78_V	82_A	0.625	0.80
53_T	65_T	0.625	0.80
15_R	95_S	0.623	0.80
71_A	75_G	0.619	0.80
11_A	14_A	0.615	0.79
68_K	104_Q	0.602	0.78
40_I	45_S	0.602	0.78
82_A	110_A	0.599	0.78
68_K	71_A	0.598	0.78
49_V	85_K	0.596	0.77
29_H	32_P	0.591	0.77
86_G	112_E	0.588	0.76
56_K	77_A	0.586	0.76
72_A	108_D	0.584	0.76
79_A	115_L	0.582	0.76
4_K	10_R	0.580	0.75
25_R	42_P	0.576	0.75
36_Y	52_S	0.576	0.75
30_R	65_T	0.575	0.75
12_T	27_V	0.573	0.74
57_A	81_R	0.569	0.74
105_A	108_D	0.568	0.74
22_G	89_D	0.566	0.74
24_T	41_A	0.566	0.74
7_R	16_R	0.564	0.73
3_K	11_A	0.557	0.72
10_R	58_I	0.556	0.72
80_E	113_A	0.550	0.71
52_S	55_E	0.547	0.71
32_P	64_Y	0.546	0.71
63_K	73_A	0.544	0.71
37_A	106_L	0.541	0.70
9_R	13_R	0.539	0.70
27_V	47_V	0.536	0.70
70_A	102_R	0.536	0.70
12_T	17_K	0.536	0.70
46_E	50_A	0.530	0.69
41_A	45_S	0.529	0.69
99_Y	111_R	0.528	0.68
17_K	20_E	0.525	0.68
55_E	58_I	0.522	0.68
57_A	77_A	0.522	0.68
24_T	48_L	0.519	0.67
49_V	87_I	0.519	0.67
53_T	67_N	0.515	0.67
50_A	74_V	0.508	0.65
9_R	107_A	0.508	0.65
11_A	104_Q	0.506	0.65
58_I	77_A	0.503	0.65
68_K	102_R	0.500	0.64

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) 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	%	HHΔ
3bboQ	1	1	100	0.151	Contact Map
4tp9O	1	0.0171	100	0.175	Contact Map
4rb6S	1	0.9402	100	0.181	Contact Map
1ovyA	1	0.8205	100	0.201	Contact Map
2zjrL	1	0.8547	100	0.202	Contact Map
1vq8N	1	0.9829	100	0.283	Contact Map
4w20D	1	1	100	0.284	Contact Map
3j7yP	1	0.9487	100	0.287	Contact Map
3j39D	1	1	100	0.289	Contact Map
1vx7R	1	1	100	0.29	Contact Map

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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