RISB - BACSU - GREMLIN Contacts

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RISB - 6,7-dimethyl-8-ribityllumazine synthase

UniProt:	P11998	Sequences: MNIIQGNLVGTGLKIGIVVGRFNDFITSKLLSGAEDALLRHGVDTNDIDVAWVPGAFEIPFAAKKMAETKKYDAIITLGTVIRGATTHYDYVCNEAAKGIAQAANTTGVPVIFGIVTTENIEQAIERAGTKAGNKGVDCAVSAIEMANLNRSFE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	154 (142)
Sequences:	3247 (1620)
Seq/√Len:	135.9

ECOLI - RISB
BACSU - RISB
HALSA - RISB
SULSO - RISB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
102_Q	106_T	3.342	1.00
74_A	143_A	3.147	1.00
16_G	66_M	3.044	1.00
49_D	72_Y	2.581	1.00
31_L	50_V	2.543	1.00
37_A	137_V	2.298	1.00
19_V	31_L	2.237	1.00
13_L	147_A	2.073	1.00
64_K	106_T	2.020	1.00
68_E	108_G	2.020	1.00
10_G	43_V	2.016	1.00
51_A	66_M	2.005	1.00
63_A	77_T	1.986	1.00
25_F	125_I	1.857	1.00
35_E	39_L	1.839	1.00
77_T	100_I	1.836	1.00
12_G	47_D	1.836	1.00
83_R	119_E	1.819	1.00
37_A	141_V	1.780	1.00
64_K	68_E	1.779	1.00
95_E	98_K	1.772	1.00
135_K	138_D	1.744	1.00
59_I	115_I	1.724	1.00
24_D	28_S	1.724	1.00
38_L	43_V	1.704	1.00
21_R	145_E	1.659	1.00
85_A	126_E	1.641	1.00
98_K	102_Q	1.604	1.00
61_F	150_N	1.559	1.00
25_F	121_I	1.540	1.00
13_L	151_R	1.540	1.00
112_I	142_S	1.527	1.00
96_A	115_I	1.463	1.00
87_T	90_D	1.460	1.00
15_I	147_A	1.435	1.00
122_E	126_E	1.401	1.00
81_V	92_V	1.399	1.00
64_K	105_N	1.396	1.00
29_K	32_S	1.383	1.00
28_S	52_W	1.376	1.00
65_K	108_G	1.375	1.00
16_G	72_Y	1.373	1.00
61_F	104_A	1.372	1.00
57_F	113_F	1.368	1.00
18_V	63_A	1.349	1.00
119_E	123_Q	1.296	1.00
19_V	50_V	1.294	1.00
67_A	107_T	1.254	1.00
90_D	93_C	1.250	1.00
26_I	80_T	1.244	1.00
87_T	91_Y	1.239	1.00
41_H	144_I	1.214	1.00
44_D	47_D	1.179	0.99
81_V	93_C	1.148	0.99
53_V	62_A	1.143	0.99
67_A	75_I	1.140	0.99
18_V	59_I	1.138	0.99
128_A	134_N	1.136	0.99
35_E	48_I	1.125	0.99
65_K	150_N	1.111	0.99
94_N	98_K	1.102	0.99
89_Y	93_C	1.101	0.99
20_G	27_T	1.097	0.99
15_I	38_L	1.094	0.99
112_I	139_C	1.092	0.99
91_Y	94_N	1.078	0.99
64_K	108_G	1.078	0.99
67_A	109_V	1.077	0.99
38_L	76_I	1.074	0.99
62_A	150_N	1.067	0.99
96_A	113_F	1.063	0.99
19_V	27_T	1.055	0.99
38_L	140_A	1.049	0.99
37_A	40_R	1.048	0.99
87_T	119_E	1.035	0.99
60_P	99_G	1.035	0.99
126_E	130_T	1.016	0.98
78_L	114_G	0.991	0.98
121_I	130_T	0.983	0.98
82_I	121_I	0.966	0.98
69_T	72_Y	0.966	0.98
143_A	147_A	0.958	0.98
36_D	40_R	0.958	0.98
63_A	75_I	0.955	0.98
64_K	107_T	0.946	0.98
26_I	125_I	0.941	0.97
37_A	41_H	0.938	0.97
68_E	107_T	0.934	0.97
54_P	146_M	0.930	0.97
83_R	87_T	0.920	0.97
31_L	35_E	0.914	0.97
32_S	36_D	0.913	0.97
67_A	103_A	0.911	0.97
15_I	143_A	0.911	0.97
114_G	139_C	0.910	0.97
112_I	143_A	0.904	0.97
101_A	104_A	0.891	0.96
35_E	50_V	0.876	0.96
103_A	111_V	0.876	0.96
137_V	141_V	0.868	0.96
28_S	32_S	0.867	0.96
97_A	113_F	0.850	0.95
24_D	52_W	0.850	0.95
11_T	44_D	0.849	0.95
32_S	35_E	0.847	0.95
23_N	80_T	0.844	0.95
31_L	52_W	0.835	0.95
60_P	101_A	0.829	0.95
10_G	13_L	0.829	0.95
129_G	132_A	0.826	0.95
89_Y	119_E	0.821	0.94
39_L	48_I	0.818	0.94
16_G	51_A	0.802	0.94
121_I	125_I	0.794	0.93
19_V	52_W	0.789	0.93
17_I	31_L	0.782	0.93
49_D	71_K	0.775	0.92
26_I	121_I	0.772	0.92
102_Q	105_N	0.767	0.92
57_F	97_A	0.759	0.92
23_N	27_T	0.753	0.91
75_I	109_V	0.749	0.91
63_A	100_I	0.744	0.91
65_K	68_E	0.740	0.91
30_L	33_G	0.739	0.91
99_G	103_A	0.738	0.91
61_F	103_A	0.736	0.90
14_K	47_D	0.733	0.90
59_I	77_T	0.733	0.90
61_F	65_K	0.725	0.90
68_E	106_T	0.724	0.90
125_I	130_T	0.721	0.89
118_T	124_A	0.716	0.89
99_G	105_N	0.710	0.89
74_A	112_I	0.703	0.88
85_A	130_T	0.689	0.87
14_K	44_D	0.688	0.87
15_I	74_A	0.686	0.87
54_P	145_E	0.684	0.87
27_T	80_T	0.683	0.87
57_F	91_Y	0.679	0.87
73_D	151_R	0.671	0.86
66_M	72_Y	0.669	0.86
51_A	62_A	0.667	0.86
124_A	127_R	0.664	0.85
94_N	97_A	0.657	0.85
69_T	109_V	0.655	0.85
33_G	134_N	0.654	0.84
146_M	150_N	0.651	0.84
20_G	59_I	0.649	0.84
91_Y	113_F	0.643	0.83
17_I	34_A	0.641	0.83
148_N	152_S	0.641	0.83
88_H	127_R	0.639	0.83
13_L	16_G	0.636	0.83
146_M	149_L	0.635	0.83
59_I	100_I	0.634	0.83
61_F	64_K	0.632	0.82
74_A	147_A	0.631	0.82
21_R	28_S	0.630	0.82
13_L	148_N	0.629	0.82
29_K	130_T	0.628	0.82
37_A	144_I	0.628	0.82
95_E	99_G	0.627	0.82
62_A	146_M	0.626	0.82
85_A	97_A	0.626	0.82
130_T	133_G	0.624	0.82
33_G	114_G	0.615	0.81
18_V	75_I	0.612	0.80
14_K	71_K	0.610	0.80
75_I	110_P	0.608	0.80
61_F	105_N	0.603	0.79
26_I	128_A	0.602	0.79
59_I	96_A	0.600	0.79
135_K	139_C	0.600	0.79
10_G	15_I	0.598	0.79
9_V	148_N	0.598	0.79
13_L	73_D	0.594	0.78
139_C	142_S	0.587	0.77
125_I	128_A	0.587	0.77
20_G	118_T	0.587	0.77
19_V	78_L	0.586	0.77
87_T	93_C	0.579	0.77
89_Y	116_V	0.576	0.76
15_I	76_I	0.575	0.76
71_K	109_V	0.573	0.76
14_K	70_K	0.566	0.75
33_G	136_G	0.563	0.75
86_T	127_R	0.558	0.74
63_A	103_A	0.551	0.73
83_R	90_D	0.545	0.72
85_A	121_I	0.542	0.72
57_F	92_V	0.539	0.71
122_E	125_I	0.539	0.71
9_V	12_G	0.536	0.71
61_F	146_M	0.533	0.71
29_K	128_A	0.532	0.70
70_K	109_V	0.529	0.70
120_N	123_Q	0.529	0.70
26_I	124_A	0.525	0.69
20_G	53_V	0.525	0.69
141_V	145_E	0.525	0.69
56_A	81_V	0.523	0.69
57_F	101_A	0.521	0.69
15_I	140_A	0.517	0.68
61_F	108_G	0.515	0.68
114_G	124_A	0.513	0.68
38_L	48_I	0.512	0.67
17_I	76_I	0.509	0.67
18_V	66_M	0.509	0.67
76_I	140_A	0.503	0.66
76_I	139_C	0.503	0.66
104_A	107_T	0.500	0.66

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
1rvvA	6	1	100	0.053	Contact Map
1hqkA	6	1	100	0.054	Contact Map
3nq4A	6	0.9935	100	0.055	Contact Map
1c2yA	6	0.9935	100	0.071	Contact Map
1kz1A	5	0.9416	100	0.078	Contact Map
1di0A	5	0.9351	100	0.085	Contact Map
2obxA	4	0.961	100	0.086	Contact Map
2i0fA	3	0.9156	100	0.097	Contact Map
1ejbA	3	1	100	0.098	Contact Map
1c41A	6	0.9805	100	0.098	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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