Q980B3 - SULSO - GREMLIN Contacts

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Q980B3 - GTP Cyclohydrolase II (3,4-Dihydroxy-2-Butanone 4-Phosphate Synthase (DHBP synthase) (RibA))

UniProt:	Q980B3	Sequences: MDFLSLRKDLESGIPILIYDFDGREEETDMVFYAGAISWKSIYTLRKEAGGLICYATAINEAKTLGLNFIAEELKQHETYSKLVKKPSYGDYPAFSVWVNHVNTKTGISDYDRYITISELHKIILKTKTNPEEARREFYENFMTPGHVPILIARDIRERRGHTELSITLLQKLGLERSAVIAEILDEKSSMNKDKAKMIAKNFGLHFIEGKDIFKEVII	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	219 (190)
Sequences:	3294 (1673)
Seq/√Len:	121.4

ECOLI - RIBB
BACSU - RIBBA
HALSA - Q9HNF5
SULSO - Q980B3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_E	64_T	3.735	1.00
9_D	14_I	3.628	1.00
160_R	214_F	3.008	1.00
35_G	176_E	2.832	1.00
46_R	53_I	2.644	1.00
9_D	206_H	2.643	1.00
166_S	179_A	2.458	1.00
5_S	206_H	2.446	1.00
6_L	208_I	2.428	1.00
123_I	176_E	2.360	1.00
34_A	178_S	2.354	1.00
32_F	41_S	2.306	1.00
55_Y	120_L	2.198	1.00
154_R	158_E	2.152	1.00
62_A	152_I	2.088	1.00
63_K	152_I	2.021	1.00
46_R	185_L	2.011	1.00
59_I	155_D	1.989	1.00
137_E	142_F	1.963	1.00
57_T	62_A	1.953	1.00
52_L	108_I	1.944	1.00
115_I	119_E	1.940	1.00
8_K	12_S	1.938	1.00
199_I	203_F	1.926	1.00
36_A	175_L	1.892	1.00
117_I	148_V	1.865	1.00
119_E	142_F	1.859	1.00
99_V	120_L	1.855	1.00
18_I	165_L	1.788	1.00
59_I	63_K	1.780	1.00
30_M	199_I	1.754	1.00
33_Y	175_L	1.751	1.00
42_I	53_I	1.744	1.00
101_H	119_E	1.729	1.00
197_K	201_K	1.689	1.00
153_A	167_I	1.683	1.00
197_K	207_F	1.671	1.00
15_P	32_F	1.631	1.00
62_A	67_L	1.622	1.00
119_E	122_K	1.614	1.00
16_I	169_L	1.604	1.00
98_W	149_P	1.575	1.00
59_I	152_I	1.565	1.00
47_K	50_G	1.559	1.00
17_L	200_A	1.544	1.00
8_K	11_E	1.543	1.00
60_N	155_D	1.466	1.00
10_L	33_Y	1.445	1.00
19_Y	209_E	1.417	1.00
42_I	117_I	1.396	1.00
30_M	49_A	1.379	1.00
10_L	16_I	1.378	1.00
19_Y	193_K	1.368	1.00
28_T	196_A	1.368	1.00
52_L	149_P	1.362	1.00
169_L	208_I	1.288	1.00
101_H	104_T	1.261	1.00
18_I	208_I	1.252	0.99
19_Y	207_F	1.251	0.99
44_T	203_F	1.249	0.99
35_G	175_L	1.246	0.99
138_F	141_N	1.243	0.99
10_L	170_L	1.238	0.99
15_P	41_S	1.235	0.99
37_I	114_Y	1.222	0.99
30_M	205_L	1.210	0.99
117_I	180_V	1.201	0.99
37_I	42_I	1.196	0.99
193_K	207_F	1.190	0.99
69_F	152_I	1.189	0.99
102_V	143_M	1.187	0.99
17_L	205_L	1.178	0.99
57_T	178_S	1.175	0.99
39_W	114_Y	1.152	0.99
166_S	181_I	1.141	0.99
15_P	30_M	1.140	0.99
200_A	207_F	1.131	0.99
38_S	41_S	1.115	0.99
184_I	191_M	1.113	0.99
31_V	181_I	1.108	0.99
115_I	118_S	1.104	0.99
184_I	196_A	1.103	0.99
53_I	182_A	1.095	0.99
14_I	206_H	1.088	0.99
58_A	177_R	1.074	0.98
103_N	115_I	1.066	0.98
195_K	198_M	1.064	0.98
168_T	217_V	1.060	0.98
105_K	112_D	1.057	0.98
47_K	186_D	1.050	0.98
114_Y	118_S	1.049	0.98
121_H	178_S	1.043	0.98
37_I	41_S	1.040	0.98
55_Y	117_I	1.035	0.98
43_Y	50_G	1.029	0.98
155_D	158_E	1.029	0.98
3_F	208_I	1.027	0.98
17_L	184_I	1.020	0.98
157_R	217_V	1.000	0.97
62_A	69_F	0.991	0.97
90_G	143_M	0.991	0.97
55_Y	99_V	0.976	0.97
48_E	202_N	0.972	0.97
156_I	168_T	0.969	0.97
66_G	144_T	0.968	0.97
48_E	199_I	0.966	0.97
57_T	120_L	0.966	0.97
18_I	31_V	0.956	0.97
61_E	176_E	0.954	0.97
193_K	197_K	0.945	0.96
157_R	168_T	0.944	0.96
7_R	172_K	0.941	0.96
89_Y	143_M	0.927	0.96
170_L	178_S	0.925	0.96
33_Y	36_A	0.918	0.96
42_I	180_V	0.912	0.96
212_D	215_K	0.910	0.96
33_Y	170_L	0.910	0.96
45_L	53_I	0.909	0.96
3_F	213_I	0.897	0.95
104_T	112_D	0.892	0.95
56_A	167_I	0.886	0.95
160_R	211_K	0.883	0.95
39_W	111_Y	0.867	0.94
31_V	162_H	0.864	0.94
44_T	205_L	0.861	0.94
15_P	205_L	0.859	0.94
9_D	12_S	0.859	0.94
119_E	137_E	0.855	0.94
48_E	186_D	0.854	0.94
56_A	181_I	0.851	0.94
30_M	44_T	0.847	0.94
55_Y	148_V	0.846	0.93
50_G	185_L	0.831	0.93
111_Y	189_S	0.830	0.93
101_H	142_F	0.829	0.93
58_A	61_E	0.824	0.93
25_E	29_D	0.806	0.92
165_L	210_G	0.803	0.92
137_E	141_N	0.795	0.91
7_R	173_L	0.794	0.91
198_M	202_N	0.791	0.91
191_M	195_K	0.788	0.91
104_T	142_F	0.788	0.91
27_E	163_T	0.779	0.90
52_L	182_A	0.773	0.90
100_N	142_F	0.763	0.89
32_F	45_L	0.761	0.89
104_T	119_E	0.760	0.89
6_L	18_I	0.756	0.89
32_F	37_I	0.756	0.89
193_K	209_E	0.754	0.89
211_K	215_K	0.751	0.89
75_K	144_T	0.751	0.89
211_K	214_F	0.750	0.89
68_N	72_E	0.750	0.89
194_D	197_K	0.748	0.88
31_V	166_S	0.744	0.88
198_M	201_K	0.742	0.88
172_K	213_I	0.731	0.87
17_L	199_I	0.731	0.87
44_T	199_I	0.729	0.87
89_Y	100_N	0.729	0.87
200_A	205_L	0.725	0.87
24_R	29_D	0.723	0.87
67_L	120_L	0.716	0.86
49_A	182_A	0.714	0.86
44_T	48_E	0.714	0.86
56_A	166_S	0.712	0.86
60_N	64_T	0.708	0.86
94_A	154_R	0.706	0.85
104_T	143_M	0.706	0.85
21_F	160_R	0.706	0.85
170_L	175_L	0.705	0.85
6_L	16_I	0.703	0.85
101_H	115_I	0.702	0.85
53_I	185_L	0.700	0.85
47_K	202_N	0.700	0.85
10_L	173_L	0.698	0.85
89_Y	92_Y	0.698	0.85
7_R	10_L	0.696	0.85
55_Y	121_H	0.694	0.84
196_A	207_F	0.693	0.84
5_S	8_K	0.693	0.84
42_I	46_R	0.693	0.84
70_I	98_W	0.690	0.84
52_L	98_W	0.690	0.84
57_T	61_E	0.684	0.84
165_L	213_I	0.681	0.83
105_K	192_N	0.680	0.83
100_N	144_T	0.673	0.83
27_E	162_H	0.672	0.83
122_K	137_E	0.671	0.82
30_M	203_F	0.671	0.82
28_T	194_D	0.671	0.82
172_K	216_E	0.670	0.82
66_G	140_E	0.669	0.82
29_D	183_E	0.667	0.82
46_R	50_G	0.666	0.82
111_Y	115_I	0.665	0.82
25_E	183_E	0.664	0.82
19_Y	196_A	0.661	0.81
24_R	183_E	0.657	0.81
95_F	149_P	0.656	0.81
124_I	137_E	0.655	0.81
197_K	200_A	0.648	0.80
52_L	95_F	0.642	0.80
34_A	180_V	0.642	0.80
59_I	62_A	0.642	0.80
48_E	203_F	0.640	0.79
29_D	162_H	0.638	0.79
17_L	196_A	0.637	0.79
30_M	184_I	0.637	0.79
50_G	108_I	0.632	0.79
33_Y	173_L	0.630	0.78
163_T	183_E	0.628	0.78
29_D	163_T	0.627	0.78
42_I	45_L	0.621	0.77
14_I	204_G	0.617	0.77
46_R	52_L	0.615	0.77
49_A	185_L	0.611	0.76
166_S	170_L	0.610	0.76
121_H	176_E	0.606	0.76
43_Y	49_A	0.606	0.76
29_D	54_C	0.598	0.75
24_R	27_E	0.596	0.74
69_F	94_A	0.596	0.74
46_R	49_A	0.592	0.74
7_R	213_I	0.591	0.74
148_V	180_V	0.590	0.74
43_Y	110_D	0.589	0.74
100_N	104_T	0.587	0.73
24_R	163_T	0.584	0.73
189_S	195_K	0.581	0.73
69_F	74_L	0.578	0.72
60_N	177_R	0.578	0.72
21_F	211_K	0.574	0.72
58_A	62_A	0.572	0.71
50_G	184_I	0.567	0.71
49_A	199_I	0.565	0.70
74_L	89_Y	0.564	0.70
112_D	115_I	0.564	0.70
91_D	143_M	0.561	0.70
20_D	27_E	0.558	0.69
14_I	41_S	0.558	0.69
10_L	169_L	0.555	0.69
49_A	52_L	0.553	0.69
162_H	210_G	0.552	0.69
151_L	181_I	0.550	0.68
139_Y	144_T	0.545	0.68
3_F	7_R	0.545	0.68
27_E	183_E	0.543	0.67
171_Q	177_R	0.542	0.67
149_P	187_E	0.542	0.67
58_A	171_Q	0.538	0.67
107_G	147_H	0.537	0.67
25_E	162_H	0.537	0.67
201_K	204_G	0.533	0.66
89_Y	94_A	0.532	0.66
62_A	96_S	0.531	0.66
5_S	9_D	0.528	0.65
104_T	115_I	0.528	0.65
97_V	144_T	0.527	0.65
15_P	33_Y	0.526	0.65
118_S	121_H	0.526	0.65
64_T	137_E	0.522	0.64
30_M	45_L	0.522	0.64
64_T	176_E	0.521	0.64
42_I	49_A	0.519	0.64
25_E	163_T	0.518	0.64
58_A	155_D	0.518	0.64
66_G	139_Y	0.516	0.64
56_A	151_L	0.513	0.63
10_L	179_A	0.512	0.63
103_N	143_M	0.511	0.63
54_C	95_F	0.510	0.63
91_D	162_H	0.509	0.62
66_G	138_F	0.507	0.62
43_Y	47_K	0.507	0.62
22_D	193_K	0.506	0.62
162_H	165_L	0.505	0.62
102_V	141_N	0.505	0.62
18_I	179_A	0.504	0.62
7_R	11_E	0.502	0.61
214_F	217_V	0.500	0.61

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
1snnA	2	0.968	100	0.124	Contact Map
1k4iA	2	0.8858	100	0.134	Contact Map
4ffjA	2	0.8447	100	0.138	Contact Map
3mioA	2	0.8356	100	0.139	Contact Map
4p6dA	2	0.8402	100	0.14	Contact Map
1tksA	2	0.8584	100	0.142	Contact Map
1g57A	2	0.8676	100	0.145	Contact Map
4i14A	2	0.8447	100	0.149	Contact Map
1y0nA	1	0.1872	58.5	0.949	Contact Map
4gimA	3	0.7854	31.9	0.957	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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