PRPB - BACSU - GREMLIN Contacts

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PRPB - Methylisocitrate lyase

UniProt:	P54528	Sequences: MSWIVNKQSSQEELAGRFRKLMSAPDILQIPGAHDGMAALLAKEAGFSAIYLSGAAYTASRGLPDLGIITSAEIAERAKDLVRAADLPLLVDIDTGFGGVLNAARTAREMLEARVAAVQMEDQQLPKKCGHLNGKQLVPIKEMAQKIKAIKQAAPSLIVVARTDARAQEGLDAAIKRSEAYIEAGADAIFPEALQAENEFRQFAERIPVPLLANMTEFGKTPYYRADEFEDMGFHMVIYPVTSLRAAAKACERMFGLMKEHGSQKEGLHDMQTRKELYDTISYYDYEALDKTIAKTVLPDE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	301 (261)
Sequences:	4106 (2200)
Seq/√Len:	136.2

ECOLI - PRPB
BACSU - PRPB
SULSO - Q97VN2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
53_S	56_A	3.593	1.00
140_I	180_A	3.148	1.00
43_K	86_D	2.895	1.00
182_I	209_V	2.850	1.00
202_Q	206_R	2.822	1.00
78_A	115_V	2.786	1.00
204_A	211_L	2.670	1.00
197_E	228_E	2.536	1.00
196_A	199_E	2.520	1.00
201_R	205_E	2.453	1.00
166_R	199_E	2.419	1.00
27_I	230_E	2.411	1.00
197_E	232_M	2.366	1.00
173_A	176_K	2.320	1.00
257_L	261_H	2.304	1.00
228_E	231_D	2.284	1.00
33_A	42_A	2.283	1.00
225_R	228_E	2.282	1.00
151_K	154_A	2.211	1.00
158_I	188_A	2.203	1.00
169_E	173_A	2.199	1.00
256_G	260_E	2.186	1.00
194_L	203_F	2.184	1.00
93_I	118_V	2.002	1.00
82_V	89_L	1.976	1.00
253_R	270_D	1.970	1.00
71_S	109_E	1.953	1.00
139_P	142_E	1.900	1.00
91_V	110_M	1.891	1.00
44_E	252_E	1.871	1.00
200_F	213_A	1.865	1.00
17_R	20_K	1.849	1.00
43_K	87_L	1.838	1.00
144_A	180_A	1.815	1.00
103_A	150_I	1.793	1.00
33_A	50_I	1.752	1.00
171_L	175_I	1.746	1.00
182_I	208_P	1.745	1.00
16_G	156_S	1.711	1.00
98_G	102_N	1.700	1.00
140_I	144_A	1.685	1.00
172_D	202_Q	1.672	1.00
249_K	253_R	1.669	1.00
42_A	255_F	1.625	1.00
26_D	230_E	1.610	1.00
25_P	235_H	1.591	1.00
30_I	49_A	1.578	1.00
175_I	179_E	1.575	1.00
227_D	231_D	1.575	1.00
172_D	176_K	1.555	1.00
90_L	160_V	1.553	1.00
243_S	255_F	1.548	1.00
198_N	201_R	1.542	1.00
117_A	160_V	1.528	1.00
171_L	202_Q	1.512	1.00
27_I	237_V	1.502	1.00
178_S	189_I	1.501	1.00
252_E	256_G	1.499	1.00
140_I	181_Y	1.494	1.00
85_A	89_L	1.488	1.00
107_A	150_I	1.483	1.00
91_V	115_V	1.475	1.00
107_A	118_V	1.460	1.00
47_F	259_K	1.453	1.00
179_E	206_R	1.446	1.00
213_A	229_F	1.445	1.00
227_D	230_E	1.439	1.00
16_G	20_K	1.432	1.00
178_S	207_I	1.431	1.00
165_A	174_A	1.428	1.00
167_A	170_G	1.427	1.00
261_H	266_E	1.411	1.00
204_A	234_F	1.407	1.00
143_M	181_Y	1.400	1.00
178_S	191_P	1.385	1.00
70_T	73_E	1.378	1.00
140_I	176_K	1.362	1.00
117_A	158_I	1.359	1.00
124_Q	136_Q	1.335	1.00
93_I	110_M	1.330	1.00
41_L	255_F	1.325	1.00
147_I	186_A	1.310	1.00
138_V	142_E	1.305	1.00
197_E	201_R	1.304	1.00
247_A	250_A	1.265	1.00
61_R	80_D	1.260	1.00
38_A	251_C	1.255	1.00
42_A	50_I	1.254	1.00
142_E	145_Q	1.244	1.00
118_V	157_L	1.242	1.00
224_Y	232_M	1.236	1.00
74_I	110_M	1.224	1.00
20_K	23_S	1.221	1.00
48_S	259_K	1.221	1.00
246_A	254_M	1.216	1.00
151_K	159_V	1.212	1.00
110_M	118_V	1.209	1.00
21_L	48_S	1.205	1.00
24_A	235_H	1.201	1.00
189_I	209_V	1.198	1.00
111_L	157_L	1.198	1.00
78_A	91_V	1.195	1.00
175_I	207_I	1.186	1.00
74_I	97_F	1.161	0.99
24_A	48_S	1.152	0.99
179_E	183_E	1.139	0.99
138_V	146_K	1.134	0.99
55_A	59_A	1.131	0.99
191_P	203_F	1.125	0.99
51_Y	119_Q	1.104	0.99
57_Y	77_R	1.096	0.99
176_K	179_E	1.089	0.99
50_I	85_A	1.087	0.99
76_E	79_K	1.079	0.99
211_L	234_F	1.067	0.99
18_F	158_I	1.066	0.99
29_Q	226_A	1.062	0.99
203_F	207_I	1.061	0.99
40_L	44_E	1.060	0.99
161_A	186_A	1.059	0.99
111_L	154_A	1.056	0.99
217_E	242_T	1.055	0.99
247_A	251_C	1.054	0.99
246_A	250_A	1.049	0.99
212_L	238_I	1.045	0.99
93_I	106_T	1.035	0.99
176_K	180_A	1.026	0.99
30_I	90_L	1.026	0.99
19_R	158_I	1.025	0.99
19_R	187_D	1.017	0.98
195_Q	199_E	1.014	0.98
30_I	236_M	1.012	0.98
204_A	235_H	1.011	0.98
71_S	106_T	1.003	0.98
147_I	184_A	0.994	0.98
201_R	232_M	0.991	0.98
83_R	112_E	0.989	0.98
257_L	263_S	0.988	0.98
189_I	207_I	0.983	0.98
45_A	256_G	0.978	0.98
144_A	184_A	0.977	0.98
34_H	38_A	0.964	0.98
166_R	171_L	0.961	0.98
105_R	109_E	0.954	0.98
143_M	146_K	0.953	0.98
253_R	256_G	0.949	0.98
72_A	76_E	0.948	0.98
95_T	138_V	0.944	0.97
37_M	244_L	0.937	0.97
171_L	206_R	0.936	0.97
35_D	38_A	0.933	0.97
120_M	150_I	0.929	0.97
52_L	78_A	0.920	0.97
31_P	47_F	0.918	0.97
226_A	237_V	0.917	0.97
99_G	102_N	0.916	0.97
54_G	94_D	0.910	0.97
182_I	207_I	0.909	0.97
179_E	208_P	0.908	0.97
51_Y	238_I	0.907	0.97
119_Q	160_V	0.903	0.97
40_L	43_K	0.897	0.97
23_S	26_D	0.892	0.96
25_P	230_E	0.891	0.96
165_A	173_A	0.887	0.96
77_R	80_D	0.885	0.96
199_E	202_Q	0.883	0.96
144_A	181_Y	0.882	0.96
179_E	207_I	0.881	0.96
160_V	188_A	0.879	0.96
59_A	244_L	0.878	0.96
163_T	178_S	0.877	0.96
246_A	271_M	0.875	0.96
250_A	254_M	0.873	0.96
119_Q	164_D	0.867	0.96
111_L	155_P	0.862	0.96
63_L	70_T	0.860	0.96
17_R	21_L	0.857	0.96
55_A	241_V	0.856	0.96
15_A	116_A	0.856	0.96
98_G	106_T	0.853	0.95
30_I	160_V	0.852	0.95
52_L	89_L	0.851	0.95
192_E	214_N	0.845	0.95
79_K	112_E	0.841	0.95
64_P	68_I	0.840	0.95
63_L	73_E	0.838	0.95
14_L	17_R	0.837	0.95
255_F	259_K	0.834	0.95
166_R	174_A	0.833	0.95
180_A	183_E	0.832	0.95
57_Y	78_A	0.828	0.95
42_A	243_S	0.824	0.95
243_S	251_C	0.822	0.94
20_K	24_A	0.818	0.94
90_L	236_M	0.815	0.94
143_M	147_I	0.815	0.94
182_I	189_I	0.810	0.94
53_S	241_V	0.809	0.94
100_V	142_E	0.808	0.94
19_R	156_S	0.804	0.94
204_A	232_M	0.803	0.94
188_A	236_M	0.798	0.94
174_A	203_F	0.796	0.93
41_L	45_A	0.796	0.93
258_M	264_Q	0.796	0.93
273_T	276_E	0.794	0.93
35_D	60_S	0.791	0.93
140_I	143_M	0.787	0.93
201_R	228_E	0.785	0.93
19_R	23_S	0.782	0.93
32_G	51_Y	0.780	0.93
32_G	238_I	0.777	0.93
200_F	232_M	0.776	0.93
67_G	95_T	0.775	0.93
202_Q	205_E	0.774	0.92
28_L	49_A	0.773	0.92
241_V	244_L	0.771	0.92
78_A	110_M	0.767	0.92
144_A	148_K	0.766	0.92
83_R	109_E	0.766	0.92
137_L	165_A	0.763	0.92
141_K	145_Q	0.760	0.92
148_K	152_Q	0.755	0.92
197_E	224_Y	0.754	0.91
190_F	214_N	0.753	0.91
39_A	85_A	0.752	0.91
154_A	159_V	0.751	0.91
52_L	57_Y	0.750	0.91
116_A	156_S	0.750	0.91
78_A	89_L	0.749	0.91
72_A	109_E	0.749	0.91
109_E	112_E	0.748	0.91
131_H	214_N	0.745	0.91
168_Q	173_A	0.743	0.91
179_E	209_V	0.740	0.91
249_K	252_E	0.738	0.91
228_E	232_M	0.736	0.90
79_K	113_A	0.735	0.90
252_E	276_E	0.735	0.90
24_A	27_I	0.732	0.90
77_R	81_L	0.731	0.90
116_A	155_P	0.730	0.90
74_I	91_V	0.730	0.90
163_T	191_P	0.727	0.90
106_T	110_M	0.723	0.90
175_I	206_R	0.723	0.90
151_K	187_D	0.721	0.90
198_N	260_E	0.721	0.90
200_F	234_F	0.719	0.89
43_K	85_A	0.716	0.89
79_K	83_R	0.714	0.89
245_R	277_L	0.712	0.89
160_V	236_M	0.710	0.89
21_L	24_A	0.706	0.89
267_G	270_D	0.705	0.88
59_A	277_L	0.704	0.88
52_L	81_L	0.703	0.88
93_I	107_A	0.703	0.88
103_A	146_K	0.701	0.88
181_Y	184_A	0.700	0.88
178_S	203_F	0.699	0.88
104_A	152_Q	0.693	0.88
99_G	145_Q	0.692	0.88
99_G	126_P	0.691	0.87
242_T	254_M	0.686	0.87
15_A	111_L	0.686	0.87
214_N	241_V	0.685	0.87
79_K	109_E	0.684	0.87
74_I	78_A	0.679	0.87
253_R	257_L	0.679	0.87
55_A	245_R	0.676	0.86
167_A	193_A	0.676	0.86
13_E	16_G	0.671	0.86
242_T	264_Q	0.671	0.86
219_G	222_P	0.667	0.86
147_I	151_K	0.666	0.86
140_I	173_A	0.664	0.85
18_F	22_M	0.663	0.85
41_L	248_A	0.661	0.85
40_L	84_A	0.661	0.85
99_G	142_E	0.660	0.85
37_M	248_A	0.660	0.85
104_A	149_A	0.659	0.85
69_I	74_I	0.658	0.85
172_D	206_R	0.654	0.84
82_V	116_A	0.647	0.84
171_L	199_E	0.646	0.84
165_A	170_G	0.646	0.84
36_G	84_A	0.646	0.84
61_R	77_R	0.644	0.84
248_A	272_Q	0.643	0.83
150_I	153_A	0.642	0.83
100_V	145_Q	0.639	0.83
128_K	132_L	0.635	0.83
75_A	109_E	0.633	0.83
26_D	235_H	0.633	0.83
36_G	80_D	0.628	0.82
271_M	274_R	0.626	0.82
239_Y	243_S	0.625	0.82
226_A	230_E	0.624	0.82
81_L	89_L	0.623	0.82
174_A	191_P	0.623	0.82
180_A	184_A	0.621	0.81
135_K	193_A	0.620	0.81
82_V	115_V	0.619	0.81
131_H	135_K	0.618	0.81
16_G	19_R	0.616	0.81
224_Y	229_F	0.615	0.81
117_A	188_A	0.613	0.80
26_D	48_S	0.613	0.80
100_V	149_A	0.608	0.80
107_A	111_L	0.607	0.80
110_M	115_V	0.607	0.80
103_A	120_M	0.603	0.79
149_A	152_Q	0.596	0.79
123_Q	129_C	0.594	0.78
56_A	244_L	0.593	0.78
145_Q	148_K	0.593	0.78
131_H	192_E	0.592	0.78
130_G	214_N	0.591	0.78
188_A	209_V	0.588	0.78
108_R	112_E	0.584	0.77
49_A	88_P	0.583	0.77
57_Y	74_I	0.580	0.77
148_K	151_K	0.579	0.77
39_A	81_L	0.576	0.76
15_A	156_S	0.576	0.76
46_G	87_L	0.575	0.76
18_F	30_I	0.573	0.76
21_L	26_D	0.572	0.76
82_V	113_A	0.571	0.76
21_L	28_L	0.570	0.76
225_R	263_S	0.567	0.75
61_R	76_E	0.567	0.75
249_K	276_E	0.565	0.75
107_A	154_A	0.564	0.75
71_S	110_M	0.564	0.75
103_A	149_A	0.562	0.74
179_E	182_I	0.561	0.74
18_F	28_L	0.561	0.74
71_S	75_A	0.557	0.74
60_S	77_R	0.557	0.74
166_R	195_Q	0.557	0.74
154_A	157_L	0.556	0.74
119_Q	238_I	0.555	0.74
257_L	266_E	0.555	0.74
132_L	240_P	0.553	0.73
19_R	22_M	0.552	0.73
223_Y	229_F	0.550	0.73
47_F	255_F	0.550	0.73
149_A	153_A	0.548	0.73
55_A	244_L	0.548	0.73
137_L	140_I	0.547	0.73
29_Q	239_Y	0.546	0.72
100_V	104_A	0.545	0.72
36_G	81_L	0.543	0.72
76_E	80_D	0.543	0.72
95_T	125_L	0.542	0.72
212_L	236_M	0.541	0.72
25_P	48_S	0.541	0.72
93_I	120_M	0.540	0.72
15_A	158_I	0.540	0.72
36_G	77_R	0.539	0.71
130_G	135_K	0.534	0.71
29_Q	259_K	0.532	0.70
125_L	135_K	0.530	0.70
176_K	205_E	0.530	0.70
130_G	192_E	0.526	0.70
119_Q	188_A	0.526	0.70
22_M	236_M	0.525	0.69
147_I	159_V	0.524	0.69
272_Q	277_L	0.524	0.69
32_G	53_S	0.522	0.69
135_K	214_N	0.521	0.69
49_A	238_I	0.519	0.69
263_S	266_E	0.519	0.69
58_T	69_I	0.517	0.68
15_A	155_P	0.516	0.68
142_E	147_I	0.515	0.68
132_L	277_L	0.513	0.68
241_V	245_R	0.512	0.68
274_R	277_L	0.511	0.67
148_K	176_K	0.511	0.67
215_M	223_Y	0.510	0.67
44_E	108_R	0.508	0.67
250_A	253_R	0.507	0.67
123_Q	164_D	0.507	0.67
95_T	142_E	0.505	0.66
213_A	234_F	0.504	0.66
109_E	113_A	0.503	0.66
123_Q	163_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
3fa4A	5	0.9535	100	0.214	Contact Map
3lyeA	4	0.9169	100	0.216	Contact Map
1s2wA	2	0.8306	100	0.217	Contact Map
2hjpA	4	0.9169	100	0.22	Contact Map
3eooA	4	0.9568	100	0.221	Contact Map
4iqdA	4	0.9668	100	0.226	Contact Map
1zlpA	4	0.9336	100	0.228	Contact Map
1xg4A	4	0.9402	100	0.23	Contact Map
1f8mA	4	0.99	100	0.239	Contact Map
3eolA	4	0.8837	100	0.248	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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