ARAD - ECOLI - GREMLIN Contacts

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ARAD - L-ribulose-5-phosphate 4-epimerase

UniProt:	P08203	Sequences: MLEDLKRQVLEANLALPKHNLVTLTWGNVSAVDRERGVFVIKPSGVDYSVMTADDMVVVSIETGEVVEGTKKPSSDTPTHRLLYQAFPSIGGIVHTHSRHATIWAQAGQSIPATGTTHADYFYGTIPCTRKMTDAEINGEYEWETGNVIVETFEKQGIDAAQMPGVLVHSHGPFAWGKNAEDAVHNAIVLEEVAYMGIFCRQLAPQLPDMQQTLLDKHYLRKHGAKAYYGQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10055
Length:	231 (199)
Sequences:	6309 (3867)
Seq/√Len:	274.1

ECOLI - ARAD SGBE ULAF FUCA YGBL RHAD
BACSU - ARAD MTNB
HALSA - Q9HQE3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
60_S	65_E	4.872	1.00
178_K	182_D	3.248	1.00
195_Y	199_F	3.087	1.00
100_H	199_F	3.080	1.00
38_V	58_V	2.872	1.00
5_L	31_A	2.631	1.00
109_Q	201_R	2.602	1.00
212_Q	216_D	2.599	1.00
39_F	81_R	2.508	1.00
8_Q	181_E	2.503	1.00
40_V	56_M	2.471	1.00
90_I	176_W	2.199	1.00
82_L	147_N	2.083	1.00
38_V	67_V	2.078	1.00
103_I	199_F	2.048	1.00
99_R	195_Y	2.034	1.00
100_H	195_Y	2.022	1.00
62_E	65_E	1.992	1.00
52_T	55_D	1.950	1.00
10_L	53_A	1.947	1.00
127_P	163_M	1.940	1.00
211_Q	214_L	1.938	1.00
100_H	198_I	1.907	1.00
7_R	11_E	1.901	1.00
82_L	85_Q	1.882	1.00
31_A	180_A	1.831	1.00
165_G	190_L	1.829	1.00
141_Y	147_N	1.816	1.00
40_V	58_V	1.797	1.00
94_V	183_A	1.731	1.00
91_G	179_N	1.697	1.00
199_F	202_Q	1.688	1.00
15_A	19_H	1.652	1.00
59_V	77_T	1.630	1.00
179_N	182_D	1.616	1.00
130_R	169_H	1.611	1.00
33_D	40_V	1.610	1.00
92_G	180_A	1.609	1.00
12_A	184_V	1.548	1.00
4_D	8_Q	1.538	1.00
108_G	169_H	1.503	1.00
62_E	85_Q	1.495	1.00
9_V	29_V	1.475	1.00
110_S	125_T	1.444	1.00
7_R	53_A	1.436	1.00
86_A	154_E	1.427	1.00
19_H	188_I	1.415	1.00
10_L	14_L	1.414	1.00
177_G	182_D	1.407	1.00
14_L	18_K	1.392	1.00
86_A	150_V	1.379	1.00
9_V	56_M	1.366	1.00
173_P	190_L	1.361	1.00
31_A	92_G	1.358	1.00
96_T	187_A	1.358	1.00
140_E	144_E	1.345	1.00
99_R	103_I	1.343	1.00
39_F	61_I	1.295	1.00
87_F	90_I	1.294	1.00
111_I	194_A	1.291	1.00
112_P	197_G	1.290	1.00
136_E	148_V	1.279	1.00
82_L	86_A	1.271	1.00
175_A	187_A	1.270	1.00
30_S	93_I	1.230	1.00
58_V	68_E	1.225	1.00
104_W	201_R	1.205	1.00
66_V	69_G	1.204	1.00
15_A	18_K	1.193	1.00
124_G	216_D	1.177	1.00
81_R	85_Q	1.172	1.00
30_S	84_Y	1.167	1.00
97_H	171_H	1.165	1.00
99_R	192_E	1.157	1.00
34_R	38_V	1.156	1.00
198_I	203_L	1.153	1.00
214_L	217_K	1.146	1.00
10_L	56_M	1.145	1.00
164_P	186_N	1.143	1.00
130_R	151_E	1.137	1.00
46_V	55_D	1.135	1.00
84_Y	93_I	1.134	1.00
201_R	205_P	1.127	1.00
95_H	171_H	1.119	1.00
147_N	151_E	1.119	1.00
101_A	173_P	1.113	1.00
197_G	201_R	1.105	1.00
12_A	180_A	1.102	1.00
32_V	91_G	1.092	1.00
33_D	58_V	1.082	1.00
100_H	191_E	1.077	1.00
102_T	105_A	1.071	1.00
198_I	202_Q	1.066	1.00
41_I	74_S	1.059	1.00
16_L	29_V	1.057	1.00
168_V	174_F	1.053	1.00
107_A	203_L	1.049	1.00
46_V	71_K	1.043	1.00
110_S	128_C	1.043	1.00
114_T	197_G	1.040	1.00
17_P	49_S	1.040	1.00
33_D	36_R	1.040	1.00
16_L	94_V	1.035	1.00
144_E	147_N	1.031	1.00
96_T	173_P	1.022	1.00
101_A	190_L	1.017	1.00
149_I	168_V	1.014	1.00
165_G	175_A	1.008	1.00
153_F	176_W	0.994	1.00
12_A	29_V	0.985	1.00
13_N	29_V	0.977	1.00
148_V	151_E	0.975	1.00
191_E	195_Y	0.973	1.00
153_F	166_V	0.971	1.00
39_F	77_T	0.968	1.00
61_I	85_Q	0.958	1.00
192_E	195_Y	0.953	1.00
55_D	70_T	0.937	1.00
5_L	33_D	0.926	1.00
177_G	186_N	0.924	1.00
87_F	176_W	0.918	1.00
98_S	101_A	0.917	1.00
33_D	38_V	0.913	1.00
130_R	148_V	0.908	1.00
210_M	214_L	0.903	1.00
213_T	217_K	0.899	1.00
129_T	148_V	0.894	1.00
200_C	207_L	0.892	1.00
43_P	56_M	0.886	1.00
16_L	184_V	0.883	1.00
51_M	55_D	0.882	1.00
8_Q	11_E	0.881	1.00
43_P	46_V	0.877	1.00
39_F	59_V	0.877	1.00
19_H	184_V	0.873	1.00
123_Y	212_Q	0.872	1.00
103_I	198_I	0.870	1.00
94_V	187_A	0.865	1.00
99_R	199_F	0.859	1.00
83_L	153_F	0.858	1.00
8_Q	31_A	0.855	1.00
55_D	71_K	0.852	1.00
60_S	67_V	0.850	1.00
124_G	212_Q	0.849	1.00
10_L	51_M	0.843	1.00
108_G	206_Q	0.839	1.00
83_L	90_I	0.828	0.99
213_T	216_D	0.826	0.99
79_T	174_F	0.826	0.99
41_I	76_D	0.820	0.99
216_D	219_Y	0.816	0.99
214_L	218_H	0.813	0.99
82_L	150_V	0.808	0.99
106_Q	114_T	0.806	0.99
130_R	136_E	0.801	0.99
173_P	187_A	0.798	0.99
111_I	193_V	0.795	0.99
109_Q	205_P	0.795	0.99
110_S	127_P	0.792	0.99
13_N	48_Y	0.788	0.99
211_Q	217_K	0.787	0.99
98_S	187_A	0.779	0.99
86_A	151_E	0.777	0.99
57_V	72_K	0.774	0.99
151_E	154_E	0.772	0.99
126_I	190_L	0.771	0.99
182_D	186_N	0.764	0.99
141_Y	144_E	0.763	0.99
11_E	50_V	0.762	0.99
111_I	167_L	0.749	0.99
44_S	72_K	0.748	0.99
79_T	149_I	0.745	0.99
104_W	197_G	0.741	0.99
50_V	181_E	0.739	0.99
125_T	163_M	0.733	0.99
42_K	84_Y	0.732	0.99
190_L	194_A	0.730	0.99
15_A	184_V	0.730	0.99
127_P	166_V	0.730	0.99
30_S	41_I	0.728	0.99
129_T	168_V	0.718	0.99
6_K	40_V	0.714	0.98
46_V	51_M	0.712	0.98
98_S	191_E	0.709	0.98
108_G	208_P	0.707	0.98
4_D	7_R	0.705	0.98
6_K	68_E	0.705	0.98
22_V	29_V	0.700	0.98
42_K	51_M	0.694	0.98
37_G	61_I	0.693	0.98
155_K	163_M	0.692	0.98
77_T	81_R	0.688	0.98
5_L	8_Q	0.685	0.98
210_M	215_L	0.685	0.98
129_T	152_T	0.678	0.98
175_A	186_N	0.675	0.98
20_N	195_Y	0.675	0.98
107_A	205_P	0.674	0.98
34_R	37_G	0.673	0.98
91_G	178_K	0.662	0.98
16_L	21_L	0.659	0.97
24_L	185_H	0.658	0.97
87_F	153_F	0.655	0.97
32_V	61_I	0.654	0.97
113_A	118_H	0.649	0.97
85_Q	150_V	0.647	0.97
102_T	196_M	0.645	0.97
116_T	119_A	0.641	0.97
114_T	201_R	0.639	0.97
76_D	145_T	0.639	0.97
32_V	37_G	0.639	0.97
152_T	166_V	0.637	0.97
50_V	55_D	0.635	0.97
28_N	74_S	0.631	0.97
28_N	76_D	0.631	0.97
27_G	48_Y	0.629	0.97
5_L	40_V	0.626	0.97
47_D	50_V	0.624	0.96
150_V	153_F	0.622	0.96
98_S	173_P	0.621	0.96
23_T	192_E	0.620	0.96
92_G	183_A	0.619	0.96
25_T	44_S	0.619	0.96
148_V	152_T	0.618	0.96
83_L	174_F	0.617	0.96
9_V	40_V	0.616	0.96
17_P	22_V	0.611	0.96
89_S	178_K	0.607	0.96
60_S	64_G	0.607	0.96
6_K	58_V	0.607	0.96
136_E	145_T	0.607	0.96
141_Y	146_G	0.603	0.96
23_T	26_W	0.603	0.96
212_Q	215_L	0.603	0.96
64_G	81_R	0.601	0.96
144_E	148_V	0.600	0.96
101_A	167_L	0.594	0.95
78_P	141_Y	0.594	0.95
106_Q	115_G	0.594	0.95
104_W	194_A	0.593	0.95
215_L	218_H	0.591	0.95
182_D	185_H	0.591	0.95
32_V	39_F	0.588	0.95
203_L	207_L	0.588	0.95
102_T	172_G	0.588	0.95
121_Y	186_N	0.583	0.95
107_A	198_I	0.580	0.95
61_I	81_R	0.580	0.95
37_G	62_E	0.573	0.94
103_I	196_M	0.571	0.94
107_A	200_C	0.571	0.94
164_P	178_K	0.570	0.94
58_V	67_V	0.569	0.94
152_T	155_K	0.568	0.94
44_S	74_S	0.567	0.94
105_A	167_L	0.564	0.94
164_P	182_D	0.560	0.94
104_W	198_I	0.559	0.94
200_C	206_Q	0.557	0.94
131_K	168_V	0.555	0.93
94_V	175_A	0.553	0.93
44_S	75_S	0.549	0.93
126_I	165_G	0.547	0.93
200_C	204_A	0.545	0.93
137_I	213_T	0.541	0.93
115_G	118_H	0.541	0.93
9_V	13_N	0.539	0.92
78_P	82_L	0.539	0.92
59_V	81_R	0.537	0.92
38_V	61_I	0.537	0.92
150_V	154_E	0.536	0.92
101_A	194_A	0.531	0.92
166_V	174_F	0.531	0.92
6_K	53_A	0.530	0.92
17_P	23_T	0.530	0.92
101_A	187_A	0.527	0.92
104_W	109_Q	0.527	0.92
29_V	180_A	0.523	0.91
17_P	48_Y	0.520	0.91
57_V	66_V	0.519	0.91
38_V	60_S	0.519	0.91
19_H	24_L	0.517	0.91
121_Y	189_V	0.517	0.91
106_Q	196_M	0.515	0.91
13_N	51_M	0.515	0.91
6_K	56_M	0.514	0.91
87_F	164_P	0.513	0.90
26_W	192_E	0.511	0.90
117_T	189_V	0.511	0.90
84_Y	92_G	0.509	0.90
100_H	103_I	0.508	0.90
28_N	42_K	0.506	0.90
15_A	24_L	0.505	0.90
108_G	207_L	0.504	0.90
139_G	144_E	0.502	0.90
8_Q	179_N	0.501	0.89
205_P	208_P	0.501	0.89
13_N	42_K	0.500	0.89

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
1k0wA	3	0.9524	100	0.149	Contact Map
4c24A	3	0.8961	100	0.153	Contact Map
1e4cP	3	0.8831	100	0.178	Contact Map
3ocrA	4	0.9264	100	0.196	Contact Map
2opiA	3	0.8701	100	0.208	Contact Map
4xxfA	3	0.9004	100	0.215	Contact Map
2z7bA	3	0.9351	100	0.219	Contact Map
2fk5A	4	0.8182	100	0.221	Contact Map
2v9lA	3	0.9394	100	0.225	Contact Map
1pvtA	3	0.8398	100	0.237	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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