RISB - HALSA - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

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

UniProt:	Q9HRM5	Sequences: MTRLGLVVAEFNRSVTERMEAAAREAAADADAAITDTVHVPGAYDSPLAADRLARRDDIDAVAVVGAIVTGDTDHDHVIASATADTLTDVSLERDTPVTFGVSGPGMSGAEARERVEKGAAAVESAVSLTQEL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	133 (128)
Sequences:	3116 (1529)
Seq/√Len:	135.2

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
89_D	93_E	3.358	1.00
61_A	126_A	3.146	1.00
5_G	53_L	3.134	1.00
26_A	120_A	2.376	1.00
8_V	20_E	2.321	1.00
55_R	95_D	1.973	1.00
50_A	64_V	1.970	1.00
14_S	113_R	1.917	1.00
51_D	93_E	1.880	1.00
70_T	106_G	1.864	1.00
24_R	28_A	1.852	1.00
118_K	121_A	1.841	1.00
26_A	124_E	1.827	1.00
27_A	32_A	1.798	1.00
36_D	59_I	1.789	1.00
72_D	114_E	1.786	1.00
82_A	85_D	1.783	1.00
64_V	87_L	1.781	1.00
46_S	102_V	1.746	1.00
10_E	128_S	1.735	1.00
51_D	55_R	1.723	1.00
85_D	89_D	1.698	1.00
20_E	37_T	1.655	1.00
110_A	114_E	1.640	1.00
13_R	17_E	1.624	1.00
14_S	109_G	1.513	1.00
99_T	125_S	1.500	1.00
5_G	59_I	1.497	1.00
48_L	91_S	1.468	1.00
51_D	92_L	1.454	1.00
83_T	102_V	1.443	1.00
52_R	95_D	1.442	1.00
18_R	21_A	1.431	1.00
68_I	79_I	1.426	1.00
4_L	130_T	1.418	1.00
17_E	39_H	1.398	1.00
74_D	77_H	1.394	1.00
38_V	53_L	1.363	1.00
44_Y	100_F	1.344	1.00
7_V	50_A	1.331	1.00
74_D	78_V	1.277	1.00
28_A	34_I	1.272	1.00
54_A	94_R	1.263	1.00
15_V	67_A	1.251	1.00
30_A	127_V	1.237	1.00
106_G	111_E	1.212	1.00
40_V	49_A	1.186	0.99
77_H	80_A	1.177	0.99
76_D	80_A	1.161	0.99
68_I	80_A	1.157	0.99
54_A	62_V	1.133	0.99
7_V	46_S	1.130	0.99
81_S	85_D	1.126	0.99
9_A	16_T	1.104	0.99
54_A	96_T	1.101	0.99
51_D	95_D	1.098	0.99
74_D	106_G	1.095	0.99
99_T	122_A	1.095	0.99
27_A	123_V	1.089	0.99
126_A	130_T	1.087	0.99
27_A	63_A	1.087	0.99
8_V	16_T	1.086	0.99
4_L	27_A	1.080	0.99
50_A	62_V	1.076	0.99
26_A	29_D	1.046	0.99
69_V	109_G	1.025	0.98
83_T	100_F	1.010	0.98
78_V	81_S	1.010	0.98
25_E	29_D	0.994	0.98
56_R	59_I	0.990	0.98
47_P	86_T	0.983	0.98
65_V	101_G	0.982	0.98
20_E	39_H	0.971	0.98
26_A	30_A	0.958	0.98
41_P	129_L	0.957	0.98
54_A	90_V	0.947	0.97
99_T	126_A	0.946	0.97
51_D	94_R	0.942	0.97
12_N	67_A	0.941	0.97
109_G	114_E	0.941	0.97
55_R	94_R	0.927	0.97
101_G	122_A	0.927	0.97
88_T	91_S	0.918	0.97
20_E	24_R	0.917	0.97
21_A	25_E	0.916	0.97
15_V	113_R	0.898	0.97
90_V	98_V	0.893	0.96
109_G	113_R	0.888	0.96
17_E	21_A	0.884	0.96
50_A	87_L	0.881	0.96
8_V	39_H	0.879	0.96
70_T	74_D	0.866	0.96
13_R	39_H	0.866	0.96
108_S	111_E	0.865	0.96
6_L	20_E	0.863	0.96
24_R	37_T	0.852	0.95
84_A	100_F	0.850	0.95
22_A	117_E	0.846	0.95
21_A	24_R	0.840	0.95
4_L	32_A	0.838	0.95
48_L	52_R	0.837	0.95
46_S	64_V	0.829	0.95
4_L	126_A	0.827	0.94
62_V	96_T	0.823	0.94
76_D	106_G	0.819	0.94
112_A	115_R	0.814	0.94
19_M	22_A	0.810	0.94
120_A	124_E	0.808	0.94
47_P	88_T	0.807	0.94
52_R	55_R	0.807	0.94
48_L	90_V	0.805	0.94
86_T	90_V	0.775	0.92
105_P	112_A	0.771	0.92
3_R	33_A	0.767	0.92
12_N	16_T	0.766	0.92
48_L	51_D	0.758	0.92
53_L	59_I	0.741	0.91
49_A	129_L	0.737	0.90
44_Y	84_A	0.736	0.90
4_L	61_A	0.725	0.90
89_D	92_L	0.722	0.89
75_H	115_R	0.719	0.89
24_R	34_I	0.719	0.89
41_P	128_S	0.716	0.89
72_D	109_G	0.715	0.89
48_L	92_L	0.706	0.88
8_V	37_T	0.698	0.88
61_A	99_T	0.685	0.87
3_R	58_D	0.684	0.87
44_Y	78_V	0.684	0.87
16_T	67_A	0.681	0.87
36_D	58_D	0.675	0.86
118_K	122_A	0.667	0.85
54_A	57_D	0.667	0.85
46_S	87_L	0.655	0.84
5_G	38_V	0.651	0.84
6_L	23_A	0.650	0.84
22_A	119_G	0.649	0.84
82_A	86_T	0.647	0.84
4_L	123_V	0.647	0.84
22_A	116_V	0.644	0.83
72_D	84_A	0.639	0.83
55_R	93_E	0.638	0.83
62_V	97_P	0.637	0.83
122_A	125_S	0.631	0.82
48_L	129_L	0.627	0.82
18_R	116_V	0.624	0.81
15_V	109_G	0.624	0.81
25_E	120_A	0.621	0.81
81_S	84_A	0.620	0.81
44_Y	79_I	0.615	0.80
7_V	53_L	0.615	0.80
57_D	96_T	0.614	0.80
73_T	115_R	0.614	0.80
8_V	65_V	0.613	0.80
7_V	49_A	0.608	0.80
86_T	92_L	0.607	0.80
63_A	123_V	0.605	0.79
26_A	127_V	0.601	0.79
4_L	63_A	0.600	0.79
61_A	130_T	0.600	0.79
78_V	100_F	0.597	0.78
10_E	17_E	0.596	0.78
9_A	46_S	0.594	0.78
110_A	115_R	0.586	0.77
46_S	83_T	0.584	0.77
28_A	35_T	0.583	0.77
74_D	80_A	0.582	0.77
3_R	57_D	0.575	0.76
58_D	96_T	0.570	0.75
43_A	68_I	0.561	0.74
7_V	62_V	0.561	0.74
113_R	116_V	0.561	0.74
15_V	116_V	0.560	0.74
5_G	62_V	0.560	0.74
22_A	101_G	0.560	0.74
112_A	116_V	0.557	0.74
99_T	129_L	0.554	0.73
76_D	103_S	0.546	0.72
124_E	128_S	0.544	0.72
70_T	77_H	0.544	0.72
56_R	96_T	0.542	0.72
30_A	124_E	0.536	0.71
63_A	99_T	0.534	0.70
110_A	113_R	0.531	0.70
59_I	96_T	0.530	0.70
9_A	40_V	0.525	0.69
50_A	90_V	0.516	0.68
6_L	63_A	0.516	0.68
127_V	130_T	0.512	0.67
44_Y	88_T	0.510	0.67
9_A	105_P	0.500	0.65

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
1c2yA	6	0.9925	100	0.087	Contact Map
1kz1A	5	0.9925	100	0.092	Contact Map
1ejbA	3	0.9925	100	0.093	Contact Map
1hqkA	6	0.9925	100	0.093	Contact Map
1rvvA	6	0.9925	100	0.096	Contact Map
3nq4A	6	0.9925	100	0.098	Contact Map
1di0A	5	0.9925	100	0.102	Contact Map
2obxA	4	0.9925	100	0.104	Contact Map
4j07A	3	0.9774	100	0.107	Contact Map
1c41A	6	0.9925	100	0.107	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.

Page generated in 0.0063 seconds.