RL21 - ECOLI - GREMLIN Contacts

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RL21 - 50S ribosomal protein L21

UniProt:	P0AG48	Sequences: MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIKAEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGISA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG50001
Length:	103 (100)
Sequences:	2618 (1399)
Seq/√Len:	139.9

ECOLI - RL21
BACSU - RL21

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
62_E	99_T	3.328	1.00
6_Q	37_E	3.283	1.00
16_E	100_G	3.053	1.00
68_R	92_W	2.779	1.00
28_A	31_E	2.725	1.00
73_K	86_Q	2.723	1.00
15_S	18_Q	2.613	1.00
27_I	63_V	2.596	1.00
21_R	95_D	2.306	1.00
61_A	98_I	2.207	1.00
34_E	58_V	2.197	1.00
62_E	97_K	2.151	1.00
32_T	60_K	1.904	1.00
35_F	96_V	1.842	1.00
78_R	83_Y	1.760	1.00
22_L	96_V	1.711	1.00
40_M	47_V	1.689	1.00
67_G	93_F	1.688	1.00
76_K	83_Y	1.594	1.00
19_T	97_K	1.546	1.00
61_A	96_V	1.521	1.00
19_T	95_D	1.495	1.00
64_V	97_K	1.487	1.00
10_K	23_E	1.432	1.00
65_A	95_D	1.384	1.00
7_S	22_L	1.383	1.00
77_F	80_R	1.376	1.00
74_I	87_Q	1.342	1.00
60_K	100_G	1.313	1.00
34_E	60_K	1.312	1.00
32_T	99_T	1.290	1.00
37_E	53_F	1.287	1.00
6_Q	53_F	1.286	1.00
27_I	31_E	1.281	1.00
5_F	35_F	1.276	1.00
24_K	92_W	1.252	1.00
29_T	65_A	1.228	1.00
75_V	84_R	1.213	1.00
43_N	46_E	1.204	1.00
7_S	23_E	1.193	1.00
2_Y	13_R	1.190	1.00
35_F	61_A	1.167	0.99
21_R	69_G	1.163	0.99
63_V	94_T	1.140	0.99
40_M	49_I	1.110	0.99
52_P	56_G	1.102	0.99
49_I	52_P	1.067	0.99
19_T	64_V	1.047	0.99
60_K	99_T	1.046	0.99
54_V	57_G	1.035	0.99
43_N	47_V	1.031	0.99
22_L	25_L	1.026	0.99
21_R	67_G	1.017	0.99
67_G	95_D	1.007	0.98
74_I	83_Y	0.997	0.98
8_G	23_E	0.967	0.98
75_V	86_Q	0.962	0.98
20_V	96_V	0.956	0.98
2_Y	47_V	0.926	0.97
77_F	84_R	0.921	0.97
78_R	82_H	0.878	0.96
41_I	57_G	0.872	0.96
32_T	62_E	0.865	0.96
23_E	91_Q	0.865	0.96
14_V	18_Q	0.832	0.95
21_R	65_A	0.829	0.95
5_F	14_V	0.826	0.95
7_S	12_H	0.825	0.95
24_K	66_H	0.816	0.95
66_H	94_T	0.802	0.94
12_H	20_V	0.799	0.94
41_I	54_V	0.787	0.94
48_K	54_V	0.783	0.93
50_G	53_F	0.777	0.93
5_F	59_I	0.766	0.93
12_H	23_E	0.755	0.92
72_V	87_Q	0.748	0.92
29_T	66_H	0.742	0.91
7_S	10_K	0.741	0.91
23_E	93_F	0.736	0.91
69_G	93_F	0.730	0.91
39_L	52_P	0.729	0.91
23_E	89_H	0.715	0.90
80_R	83_Y	0.703	0.89
43_N	48_K	0.695	0.88
67_G	92_W	0.693	0.88
26_D	66_H	0.692	0.88
41_I	101_I	0.689	0.88
20_V	98_I	0.688	0.88
65_A	93_F	0.681	0.87
74_I	82_H	0.679	0.87
25_L	94_T	0.675	0.87
83_Y	87_Q	0.656	0.85
21_R	93_F	0.650	0.85
73_K	87_Q	0.650	0.85
4_V	8_G	0.630	0.83
77_F	83_Y	0.630	0.83
33_V	96_V	0.619	0.82
25_L	33_V	0.617	0.82
30_G	62_E	0.612	0.81
74_I	84_R	0.610	0.81
50_G	56_G	0.607	0.81
77_F	82_H	0.606	0.81
73_K	76_K	0.604	0.80
50_G	54_V	0.604	0.80
51_V	56_G	0.600	0.80
20_V	61_A	0.596	0.80
51_V	54_V	0.586	0.78
37_E	52_P	0.584	0.78
48_K	55_D	0.582	0.78
76_K	85_K	0.574	0.77
7_S	35_F	0.574	0.77
27_I	33_V	0.574	0.77
51_V	55_D	0.572	0.77
7_S	25_L	0.572	0.77
8_G	22_L	0.568	0.76
3_A	8_G	0.566	0.76
78_R	81_K	0.564	0.76
52_P	57_G	0.564	0.76
63_V	66_H	0.558	0.75
36_A	58_V	0.549	0.74
2_Y	82_H	0.549	0.74
45_E	55_D	0.547	0.74
30_G	76_K	0.543	0.73
73_K	84_R	0.542	0.73
4_V	95_D	0.541	0.73
22_L	61_A	0.539	0.72
39_L	50_G	0.539	0.72
69_G	84_R	0.538	0.72
93_F	96_V	0.538	0.72
74_I	89_H	0.537	0.72
12_H	15_S	0.529	0.71
73_K	77_F	0.528	0.71
66_H	92_W	0.528	0.71
17_G	99_T	0.526	0.71
77_F	81_K	0.522	0.70
67_G	87_Q	0.521	0.70
1_M	16_E	0.520	0.70
2_Y	84_R	0.519	0.70
43_N	57_G	0.518	0.69
64_V	95_D	0.513	0.69
82_H	85_K	0.510	0.68
52_P	55_D	0.509	0.68
24_K	67_G	0.508	0.68
39_L	82_H	0.507	0.68
48_K	51_V	0.507	0.68
24_K	93_F	0.505	0.68
33_V	61_A	0.502	0.67
16_E	19_T	0.502	0.67
29_T	62_E	0.500	0.67

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
3bboT	1	1	100	0.044	Contact Map
4tp9R	1	1	100	0.059	Contact Map
3j7yS	1	1	100	0.065	Contact Map
1vw4N	1	1	100	0.067	Contact Map
4rb6V	1	0.9806	100	0.078	Contact Map
3j3wR	1	0.9903	100	0.079	Contact Map
2zjrO	1	0.9126	100	0.105	Contact Map
2xhaA	1	0.8058	63.2	0.897	Contact Map
2y4xA	1	0.5049	18.7	0.924	Contact Map
4av2M	1	0.5243	11.9	0.93	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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