RL15 - ECOLI - GREMLIN Contacts

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RL15 - 50S ribosomal protein L15

UniProt:	P02413	Sequences: MRLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGGQMPLYRRLPKFGFTSRKAAITAEIRLSDLAKVEGGVVDLNTLKAANIIGIQIEFAKVILAGEVTTPVTVRGLRVTKGARAAIEAAGGKIEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10876
Length:	144 (143)
Sequences:	2997 (1511)
Seq/√Len:	126.4

ECOLI - RL15
BACSU - RL15

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
132_R	136_E	3.812	1.00
123_R	143_E	3.439	1.00
17_K	27_L	2.926	1.00
91_D	94_T	2.726	1.00
124_G	127_V	2.716	1.00
27_L	32_G	2.655	1.00
127_V	142_I	2.607	1.00
121_T	141_K	2.562	1.00
112_L	130_G	2.506	1.00
83_A	117_T	2.343	1.00
129_K	132_R	2.270	1.00
80_S	113_A	2.142	1.00
93_N	97_A	2.133	1.00
133_A	137_A	2.043	1.00
89_V	123_R	1.944	1.00
92_L	125_L	1.913	1.00
88_G	94_T	1.853	1.00
86_E	119_P	1.808	1.00
110_V	124_G	1.795	1.00
129_K	133_A	1.785	1.00
76_E	128_T	1.727	1.00
19_L	31_G	1.698	1.00
36_K	40_S	1.667	1.00
23_I	29_K	1.664	1.00
81_D	84_K	1.642	1.00
83_A	118_T	1.636	1.00
29_K	35_H	1.621	1.00
127_V	132_R	1.617	1.00
116_V	120_V	1.614	1.00
109_K	126_R	1.610	1.00
133_A	136_E	1.571	1.00
91_D	123_R	1.569	1.00
2_R	5_T	1.541	1.00
39_K	45_G	1.524	1.00
136_E	141_K	1.468	1.00
82_L	122_V	1.468	1.00
83_A	86_E	1.461	1.00
78_R	111_I	1.413	1.00
94_T	98_A	1.411	1.00
9_A	12_S	1.398	1.00
19_L	33_R	1.358	1.00
35_H	39_K	1.330	1.00
19_L	27_L	1.312	1.00
115_E	134_A	1.300	1.00
39_K	46_V	1.298	1.00
38_Q	44_G	1.254	1.00
30_T	35_H	1.217	0.99
92_L	108_A	1.214	0.99
89_V	121_T	1.214	0.99
55_M	58_Y	1.200	0.99
78_R	112_L	1.190	0.99
110_V	135_I	1.140	0.99
108_A	124_G	1.139	0.99
90_V	95_L	1.136	0.99
35_H	40_S	1.135	0.99
24_G	27_L	1.099	0.99
51_E	60_R	1.096	0.99
39_K	44_G	1.088	0.99
110_V	122_V	1.084	0.99
88_G	118_T	1.080	0.99
79_L	134_A	1.063	0.99
90_V	120_V	1.046	0.98
8_P	13_K	1.041	0.98
135_I	140_G	1.017	0.98
74_T	126_R	1.013	0.98
82_L	120_V	1.006	0.98
8_P	12_S	1.004	0.98
45_G	48_R	0.996	0.98
87_G	90_V	0.994	0.98
85_V	88_G	0.994	0.98
111_I	128_T	0.993	0.98
74_T	107_F	0.992	0.98
15_A	27_L	0.986	0.98
110_V	127_V	0.981	0.97
16_G	19_L	0.971	0.97
47_R	58_Y	0.968	0.97
119_P	141_K	0.965	0.97
75_A	105_I	0.963	0.97
33_R	40_S	0.963	0.97
86_E	118_T	0.958	0.97
122_V	135_I	0.935	0.97
96_K	104_Q	0.933	0.97
127_V	135_I	0.932	0.97
55_M	59_R	0.930	0.97
38_Q	46_V	0.905	0.96
19_L	32_G	0.902	0.96
50_F	54_Q	0.902	0.96
90_V	94_T	0.901	0.96
81_D	113_A	0.899	0.96
30_T	36_K	0.898	0.96
101_I	108_A	0.894	0.96
75_A	107_F	0.891	0.96
68_S	71_A	0.883	0.95
88_G	98_A	0.876	0.95
78_R	113_A	0.875	0.95
72_A	107_F	0.873	0.95
92_L	101_I	0.858	0.95
119_P	138_A	0.853	0.94
51_E	54_Q	0.847	0.94
57_L	61_L	0.838	0.94
81_D	100_I	0.838	0.94
102_G	105_I	0.836	0.94
94_T	97_A	0.836	0.94
1_M	5_T	0.833	0.94
92_L	96_K	0.830	0.94
121_T	143_E	0.817	0.93
78_R	128_T	0.815	0.93
20_G	31_G	0.808	0.93
9_A	13_K	0.805	0.92
132_R	142_I	0.802	0.92
113_A	134_A	0.788	0.92
75_A	106_E	0.787	0.92
111_I	131_A	0.784	0.91
29_K	32_G	0.780	0.91
96_K	103_I	0.780	0.91
27_L	31_G	0.779	0.91
79_L	112_L	0.773	0.91
90_V	98_A	0.769	0.91
80_S	83_A	0.768	0.91
16_G	27_L	0.756	0.90
14_K	27_L	0.755	0.90
122_V	127_V	0.751	0.90
107_F	126_R	0.734	0.89
124_G	135_I	0.729	0.88
96_K	101_I	0.727	0.88
72_A	76_E	0.716	0.87
14_K	17_K	0.709	0.87
40_S	43_G	0.703	0.86
116_V	119_P	0.701	0.86
23_I	30_T	0.700	0.86
95_L	101_I	0.700	0.86
23_I	35_H	0.692	0.85
42_S	45_G	0.688	0.85
87_G	120_V	0.683	0.85
7_S	12_S	0.682	0.85
76_E	111_I	0.680	0.84
116_V	138_A	0.677	0.84
64_F	70_K	0.675	0.84
51_E	56_P	0.669	0.84
104_Q	107_F	0.667	0.83
56_P	59_R	0.667	0.83
24_G	64_F	0.660	0.83
65_G	68_S	0.659	0.83
76_E	126_R	0.659	0.83
79_L	138_A	0.657	0.82
111_I	114_G	0.657	0.82
75_A	102_G	0.654	0.82
95_L	99_N	0.653	0.82
44_G	47_R	0.653	0.82
124_G	142_I	0.648	0.82
89_V	143_E	0.647	0.81
71_A	74_T	0.643	0.81
15_A	31_G	0.643	0.81
75_A	101_I	0.642	0.81
92_L	104_Q	0.640	0.81
77_I	110_V	0.637	0.80
116_V	135_I	0.632	0.80
79_L	116_V	0.632	0.80
53_G	56_P	0.631	0.80
77_I	100_I	0.629	0.80
40_S	44_G	0.627	0.79
95_L	100_I	0.623	0.79
33_R	39_K	0.619	0.79
132_R	141_K	0.619	0.79
130_G	134_A	0.612	0.78
43_G	46_V	0.609	0.77
107_F	125_L	0.608	0.77
91_D	97_A	0.606	0.77
71_A	76_E	0.603	0.77
123_R	141_K	0.602	0.77
111_I	134_A	0.591	0.75
79_L	83_A	0.589	0.75
79_L	122_V	0.586	0.75
121_T	138_A	0.581	0.74
29_K	64_F	0.581	0.74
73_I	104_Q	0.580	0.74
14_K	31_G	0.578	0.74
95_L	124_G	0.572	0.73
85_V	98_A	0.571	0.73
67_T	70_K	0.568	0.72
12_S	57_L	0.567	0.72
68_S	74_T	0.567	0.72
9_A	24_G	0.564	0.72
7_S	10_E	0.563	0.72
42_S	46_V	0.563	0.72
50_F	53_G	0.562	0.72
92_L	97_A	0.559	0.71
76_E	110_V	0.553	0.70
79_L	113_A	0.549	0.70
31_G	35_H	0.549	0.70
25_S	36_K	0.547	0.70
85_V	94_T	0.545	0.69
103_I	108_A	0.545	0.69
108_A	112_L	0.545	0.69
87_G	119_P	0.541	0.69
96_K	105_I	0.536	0.68
87_G	118_T	0.536	0.68
35_H	43_G	0.535	0.68
112_L	134_A	0.535	0.68
118_T	121_T	0.534	0.68
114_G	134_A	0.531	0.67
78_R	114_G	0.530	0.67
109_K	128_T	0.529	0.67
90_V	122_V	0.527	0.67
31_G	40_S	0.524	0.66
56_P	60_R	0.513	0.65
33_R	59_R	0.511	0.64
7_S	11_G	0.506	0.64
35_H	42_S	0.506	0.64
44_G	55_M	0.505	0.63
1_M	61_L	0.503	0.63
19_L	25_S	0.502	0.63
51_E	61_L	0.502	0.63
85_V	118_T	0.500	0.63

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
3j3wL	1	1	100	0.061	Contact Map
1vw4J	1	0.9861	100	0.083	Contact Map
4tp9L	1	0.0139	100	0.084	Contact Map
2zjrI	1	0.9653	100	0.085	Contact Map
4rb6P	1	0.9792	100	0.088	Contact Map
3bboN	1	1	100	0.134	Contact Map
3j7yM	1	0.9722	100	0.151	Contact Map
1vq8L	1	0.8611	100	0.346	Contact Map
4a17K	1	0.9097	100	0.371	Contact Map
4ujrN	1	0.8681	100	0.392	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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