PRPB - ECOLI - GREMLIN Contacts

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PRPB - Methylisocitrate lyase

UniProt:	P77541	Sequences: MSLHSPGKAFRAALTKENPLQIVGTINANHALLAQRAGYQAIYLSGGGVAAGSLGLPDLGISTLDDVLTDIRRITDVCSLPLLVDADIGFGSSAFNVARTVKSMIKAGAAGLHIEDQVGAKRCGHRPNKAIVSKEEMVDRIRAAVDAKTDPDFVIMARTDALAVEGLDAAIERAQAYVEAGAEMLFPEAITELAMYRQFADAVQVPILANITEFGATPLFTTDELRSAHVAMALYPLSAFRAMNRAAEHVYNVLRQEGTQKSVIDTMQTRNELYESINYYQYEEKLDNLFARSQVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13601
Length:	296 (256)
Sequences:	4108 (2245)
Seq/√Len:	140.3

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
45_S	48_G	3.471	1.00
134_K	176_A	3.228	1.00
178_V	205_V	2.835	1.00
35_Q	79_S	2.819	1.00
198_Q	202_A	2.763	1.00
71_I	109_A	2.708	1.00
200_A	207_I	2.616	1.00
162_L	195_M	2.584	1.00
192_E	195_M	2.525	1.00
193_L	224_E	2.504	1.00
19_P	226_R	2.402	1.00
197_R	201_D	2.347	1.00
25_T	34_A	2.292	1.00
224_E	227_S	2.288	1.00
169_A	172_E	2.270	1.00
221_T	224_E	2.268	1.00
193_L	228_A	2.245	1.00
253_V	257_E	2.237	1.00
252_N	256_Q	2.237	1.00
190_I	199_F	2.155	1.00
165_E	169_A	2.119	1.00
154_V	184_M	2.109	1.00
64_L	103_S	2.024	1.00
86_A	112_L	2.012	1.00
75_T	82_L	1.948	1.00
178_V	204_Q	1.944	1.00
145_V	148_K	1.912	1.00
196_Y	209_A	1.898	1.00
36_R	248_E	1.858	1.00
133_S	136_E	1.845	1.00
35_Q	80_L	1.816	1.00
138_V	176_A	1.813	1.00
8_K	152_D	1.811	1.00
134_K	138_V	1.806	1.00
91_G	96_N	1.762	1.00
25_T	42_I	1.756	1.00
84_V	104_M	1.727	1.00
9_A	12_A	1.707	1.00
245_R	249_H	1.702	1.00
167_L	171_I	1.698	1.00
97_V	144_A	1.682	1.00
17_E	231_A	1.655	1.00
168_D	198_Q	1.620	1.00
22_I	41_A	1.602	1.00
223_D	227_S	1.597	1.00
34_A	251_Y	1.582	1.00
18_N	226_R	1.581	1.00
171_I	175_Q	1.574	1.00
168_D	172_E	1.542	1.00
167_L	198_Q	1.540	1.00
239_A	251_Y	1.534	1.00
134_K	177_Y	1.532	1.00
194_A	197_R	1.526	1.00
83_L	156_M	1.519	1.00
248_E	252_N	1.498	1.00
111_G	156_M	1.497	1.00
78_C	82_L	1.492	1.00
175_Q	202_A	1.491	1.00
174_A	185_L	1.483	1.00
257_E	262_S	1.465	1.00
84_V	109_A	1.460	1.00
19_P	233_A	1.460	1.00
39_Y	255_R	1.442	1.00
223_D	226_R	1.424	1.00
174_A	203_V	1.424	1.00
101_V	144_A	1.408	1.00
209_A	225_L	1.408	1.00
137_M	177_Y	1.397	1.00
200_A	230_V	1.394	1.00
134_K	172_E	1.393	1.00
101_V	112_L	1.393	1.00
174_A	187_P	1.384	1.00
161_A	170_A	1.370	1.00
193_L	197_R	1.346	1.00
8_K	12_A	1.343	1.00
105_I	148_K	1.330	1.00
118_V	130_A	1.325	1.00
163_A	166_G	1.325	1.00
111_G	154_V	1.297	1.00
86_A	104_M	1.291	1.00
63_T	66_D	1.284	1.00
112_L	153_F	1.274	1.00
16_K	40_Q	1.274	1.00
105_I	149_T	1.265	1.00
220_F	228_A	1.264	1.00
34_A	42_I	1.258	1.00
16_K	231_A	1.231	1.00
132_V	136_E	1.230	1.00
33_L	251_Y	1.223	1.00
71_I	84_V	1.223	1.00
141_I	182_A	1.221	1.00
104_M	112_L	1.220	1.00
145_V	155_I	1.214	1.00
40_Q	255_R	1.207	1.00
185_L	205_V	1.198	1.00
242_A	250_V	1.198	1.00
30_H	247_A	1.175	1.00
243_M	246_A	1.157	0.99
47_G	51_A	1.155	0.99
175_Q	179_E	1.148	0.99
67_V	104_M	1.146	0.99
67_V	90_F	1.132	0.99
136_E	139_D	1.123	0.99
12_A	15_T	1.122	0.99
42_I	78_C	1.117	0.99
172_E	175_Q	1.115	0.99
132_V	140_R	1.113	0.99
86_A	100_T	1.110	0.99
207_I	230_V	1.108	0.99
171_I	203_V	1.103	0.99
32_L	36_R	1.102	0.99
187_P	199_F	1.101	0.99
49_V	70_D	1.099	0.99
162_L	167_L	1.083	0.99
145_V	149_T	1.083	0.99
208_L	234_L	1.082	0.99
69_T	72_R	1.080	0.99
13_A	40_Q	1.075	0.99
148_K	155_I	1.073	0.99
114_I	144_A	1.071	0.99
243_M	247_A	1.063	0.99
157_A	182_A	1.062	0.99
11_R	183_E	1.060	0.99
242_A	246_A	1.047	0.99
105_I	153_F	1.042	0.99
43_Y	113_H	1.037	0.99
22_I	83_L	1.028	0.99
10_F	154_V	1.027	0.99
191_T	195_M	1.026	0.99
141_I	180_A	1.019	0.99
22_I	232_M	1.016	0.99
199_F	203_V	1.011	0.99
200_A	231_A	1.001	0.98
65_D	69_T	0.996	0.98
64_L	100_T	0.993	0.98
213_E	238_S	0.983	0.98
197_R	228_A	0.981	0.98
44_L	71_I	0.978	0.98
26_I	30_H	0.975	0.98
37_A	252_N	0.973	0.98
175_Q	204_Q	0.970	0.98
21_Q	222_T	0.970	0.98
172_E	176_A	0.969	0.98
185_L	203_V	0.965	0.98
88_I	132_V	0.965	0.98
249_H	252_N	0.963	0.98
94_A	136_E	0.956	0.98
11_R	154_V	0.956	0.98
269_T	272_E	0.951	0.98
222_T	233_A	0.949	0.98
16_K	19_P	0.945	0.98
99_R	103_S	0.944	0.98
138_V	177_Y	0.927	0.97
161_A	169_A	0.927	0.97
27_N	30_H	0.927	0.97
29_N	240_F	0.924	0.97
32_L	35_Q	0.920	0.97
76_D	106_K	0.915	0.97
23_V	39_Y	0.912	0.97
167_L	202_A	0.906	0.97
46_G	87_D	0.903	0.97
54_L	73_R	0.902	0.97
7_G	110_A	0.902	0.97
83_L	232_M	0.899	0.97
138_V	180_A	0.897	0.97
188_E	210_N	0.893	0.97
6_P	9_A	0.888	0.97
178_V	203_V	0.886	0.97
162_L	170_A	0.885	0.97
246_A	250_V	0.885	0.97
253_V	259_T	0.884	0.97
137_M	140_R	0.882	0.97
43_Y	234_L	0.878	0.96
141_I	145_V	0.874	0.96
44_L	82_L	0.874	0.96
70_D	73_R	0.873	0.96
72_R	106_K	0.863	0.96
17_E	226_R	0.862	0.96
57_P	61_I	0.861	0.96
184_M	232_M	0.858	0.96
156_M	184_M	0.853	0.96
159_T	174_A	0.849	0.96
113_H	156_M	0.847	0.96
248_E	272_E	0.846	0.96
51_A	240_F	0.846	0.96
56_L	63_T	0.844	0.96
56_L	66_D	0.843	0.96
103_S	106_K	0.838	0.95
186_F	210_N	0.837	0.95
15_T	18_N	0.834	0.95
113_H	160_D	0.831	0.95
175_Q	203_V	0.831	0.95
91_G	100_T	0.823	0.95
254_L	260_Q	0.822	0.95
176_A	179_E	0.822	0.95
47_G	237_L	0.820	0.95
105_I	150_D	0.818	0.95
239_A	247_A	0.817	0.95
24_G	43_Y	0.816	0.95
195_M	198_Q	0.815	0.95
251_Y	255_R	0.815	0.95
178_V	185_L	0.812	0.95
125_H	210_N	0.811	0.94
22_I	156_M	0.809	0.94
196_Y	228_A	0.809	0.94
97_V	140_R	0.808	0.94
11_R	15_T	0.806	0.94
242_A	267_M	0.804	0.94
71_I	104_M	0.800	0.94
100_T	104_M	0.797	0.94
33_L	37_A	0.789	0.94
71_I	82_L	0.787	0.94
72_R	76_D	0.785	0.93
24_G	234_L	0.778	0.93
28_A	77_V	0.774	0.93
200_A	228_A	0.774	0.93
135_E	139_D	0.773	0.93
49_V	71_I	0.773	0.93
197_R	224_E	0.773	0.93
148_K	153_F	0.767	0.93
76_D	103_S	0.765	0.93
45_S	237_L	0.765	0.93
224_E	228_A	0.762	0.92
34_A	239_A	0.760	0.92
245_R	248_E	0.759	0.92
105_I	151_P	0.749	0.92
35_Q	78_C	0.747	0.92
193_L	220_F	0.745	0.92
210_N	237_L	0.740	0.91
11_R	152_D	0.738	0.91
156_M	232_M	0.736	0.91
170_A	199_F	0.734	0.91
20_L	41_A	0.733	0.91
171_I	202_A	0.732	0.91
131_I	161_A	0.727	0.91
67_V	84_V	0.725	0.90
134_K	169_A	0.724	0.90
60_G	88_I	0.724	0.90
72_R	107_A	0.723	0.90
44_L	74_I	0.722	0.90
237_L	240_F	0.720	0.90
198_Q	201_D	0.715	0.90
65_D	103_S	0.715	0.90
238_S	250_V	0.713	0.90
44_L	49_V	0.710	0.90
142_R	146_D	0.709	0.89
137_M	141_I	0.705	0.89
94_A	139_D	0.705	0.89
175_Q	205_V	0.704	0.89
98_A	143_A	0.702	0.89
167_L	195_M	0.700	0.89
134_K	137_M	0.700	0.89
31_A	78_C	0.699	0.89
145_V	183_E	0.696	0.89
10_F	14_L	0.692	0.88
98_A	146_D	0.691	0.88
86_A	101_V	0.686	0.88
29_N	244_N	0.685	0.88
53_S	70_D	0.684	0.88
70_D	74_I	0.679	0.87
194_A	256_Q	0.679	0.87
138_V	142_R	0.679	0.87
18_N	40_Q	0.677	0.87
62_S	67_V	0.677	0.87
101_V	148_K	0.675	0.87
168_D	202_A	0.674	0.87
162_L	191_T	0.673	0.87
125_H	188_E	0.670	0.87
9_A	13_A	0.670	0.87
159_T	187_P	0.668	0.87
244_N	268_Q	0.667	0.86
110_A	151_P	0.666	0.86
94_A	143_A	0.664	0.86
72_R	103_S	0.663	0.86
97_V	143_A	0.663	0.86
163_A	189_A	0.661	0.86
133_S	138_V	0.659	0.86
174_A	199_F	0.658	0.86
67_V	71_I	0.656	0.86
249_H	253_V	0.654	0.85
75_T	109_A	0.649	0.85
7_G	150_D	0.646	0.85
47_G	241_R	0.646	0.85
41_A	81_P	0.645	0.85
161_A	166_G	0.644	0.84
196_Y	230_V	0.643	0.84
92_S	136_E	0.643	0.84
177_Y	180_A	0.641	0.84
176_A	180_A	0.639	0.84
139_D	142_R	0.637	0.84
124_G	210_N	0.636	0.84
125_H	129_K	0.635	0.84
68_L	103_S	0.631	0.83
111_G	184_M	0.631	0.83
27_N	53_S	0.629	0.83
94_A	98_A	0.628	0.83
33_L	244_N	0.627	0.83
12_A	16_K	0.623	0.82
88_I	119_G	0.623	0.82
238_S	260_Q	0.622	0.82
28_A	73_R	0.621	0.82
18_N	231_A	0.615	0.82
170_A	187_P	0.612	0.81
235_Y	239_A	0.610	0.81
222_T	226_R	0.609	0.81
144_A	147_A	0.605	0.81
124_G	188_E	0.605	0.81
75_T	107_A	0.604	0.81
32_L	77_V	0.603	0.80
102_K	106_K	0.602	0.80
129_K	210_N	0.601	0.80
129_K	189_A	0.599	0.80
220_F	225_L	0.598	0.80
126_R	129_K	0.598	0.80
54_L	62_S	0.597	0.80
38_G	80_L	0.596	0.80
221_T	259_T	0.595	0.80
184_M	205_V	0.595	0.80
54_L	66_D	0.593	0.79
110_A	152_D	0.593	0.79
150_D	153_F	0.592	0.79
104_M	109_A	0.592	0.79
31_A	74_I	0.591	0.79
10_F	20_L	0.590	0.79
92_S	132_V	0.590	0.79
48_G	240_F	0.584	0.78
253_V	262_S	0.583	0.78
74_I	82_L	0.582	0.78
101_V	105_I	0.581	0.78
75_T	110_A	0.580	0.78
86_A	114_I	0.579	0.78
211_I	219_L	0.579	0.78
10_F	22_I	0.576	0.77
259_T	262_S	0.573	0.77
164_V	169_A	0.573	0.77
143_A	147_A	0.572	0.77
21_Q	255_R	0.564	0.76
7_G	105_I	0.557	0.75
175_Q	178_V	0.553	0.74
47_G	240_F	0.552	0.74
50_A	62_S	0.550	0.74
146_D	150_D	0.549	0.74
6_P	110_A	0.547	0.74
49_V	67_V	0.547	0.74
131_I	177_Y	0.546	0.74
64_L	68_L	0.545	0.73
133_S	176_A	0.542	0.73
245_R	272_E	0.541	0.73
119_G	129_K	0.541	0.73
92_S	139_D	0.539	0.73
172_E	201_D	0.538	0.72
113_H	234_L	0.535	0.72
143_A	146_D	0.535	0.72
97_V	114_I	0.530	0.71
14_L	232_M	0.528	0.71
141_I	155_I	0.527	0.71
246_A	249_H	0.527	0.71
64_L	104_M	0.527	0.71
60_G	90_F	0.525	0.71
220_F	224_E	0.524	0.70
106_K	142_R	0.522	0.70
28_A	74_I	0.520	0.70
196_Y	200_A	0.520	0.70
88_I	117_Q	0.520	0.70
39_Y	251_Y	0.519	0.70
24_G	45_S	0.516	0.69
21_Q	235_Y	0.515	0.69
136_E	141_I	0.515	0.69
113_H	184_M	0.515	0.69
17_E	40_Q	0.515	0.69
8_K	11_R	0.515	0.69
13_A	20_L	0.514	0.69
132_V	137_M	0.514	0.69
117_Q	160_D	0.513	0.69
105_I	111_G	0.513	0.69
160_D	186_F	0.513	0.69
102_K	150_D	0.512	0.69
212_T	241_R	0.508	0.68
69_T	73_R	0.506	0.68
41_A	234_L	0.506	0.68
142_R	172_E	0.505	0.68
97_V	101_V	0.504	0.68
117_Q	159_T	0.503	0.67
24_G	113_H	0.500	0.67

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	0.9797	100	0.186	Contact Map
3lyeA	4	0.9392	100	0.188	Contact Map
1s2wA	2	0.8514	100	0.189	Contact Map
1zlpA	4	0.9595	100	0.197	Contact Map
2hjpA	4	0.9392	100	0.198	Contact Map
3eooA	4	0.9831	100	0.202	Contact Map
1xg4A	4	0.9696	100	0.206	Contact Map
4iqdA	4	0.973	100	0.223	Contact Map
1f8mA	4	0.9865	100	0.223	Contact Map
3eolA	4	0.8649	100	0.234	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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