HEM3 - ECOLI - GREMLIN Contacts

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HEM3 - Porphobilinogen deaminase

UniProt:	P06983	Sequences: MLDNVLRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVGGKGLFVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGLESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEGGCQVPIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREILAEVYNGDAPA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10429
Length:	313 (299)
Sequences:	3548 (2334)
Seq/√Len:	135.0

ECOLI - HEM3
BACSU - HEM3
HALSA - HEM3
SULSO - HEM3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
220_N	225_A	4.319	1.00
157_S	161_N	4.299	1.00
9_A	75_A	3.310	1.00
7_R	39_V	3.225	1.00
100_E	221_H	2.967	1.00
102_E	175_K	2.903	1.00
24_K	28_M	2.875	1.00
171_V	186_A	2.689	1.00
12_Q	40_P	2.684	1.00
200_A	228_V	2.584	1.00
237_R	292_E	2.572	1.00
265_A	269_S	2.463	1.00
124_I	146_R	2.400	1.00
274_G	290_L	2.398	1.00
206_R	209_D	2.345	1.00
160_D	182_R	2.345	1.00
12_Q	42_V	2.287	1.00
256_E	277_R	2.264	1.00
26_K	29_A	2.248	1.00
276_R	293_E	2.246	1.00
94_G	207_L	2.089	1.00
92_G	207_L	2.076	1.00
133_Q	137_A	2.064	1.00
115_S	118_A	2.027	1.00
274_G	293_E	2.026	1.00
146_R	164_Y	2.013	1.00
152_V	177_L	1.998	1.00
48_I	51_T	1.993	1.00
124_I	144_I	1.957	1.00
260_R	275_E	1.953	1.00
258_W	277_R	1.951	1.00
14_P	153_G	1.923	1.00
5_V	35_V	1.910	1.00
221_H	224_T	1.901	1.00
263_V	299_A	1.887	1.00
96_V	205_C	1.874	1.00
94_G	213_R	1.873	1.00
148_L	167_I	1.872	1.00
234_M	261_A	1.871	1.00
8_I	24_K	1.853	1.00
5_V	37_E	1.851	1.00
68_V	72_E	1.806	1.00
278_G	286_M	1.802	1.00
276_R	290_L	1.798	1.00
99_C	201_V	1.777	1.00
225_A	229_T	1.769	1.00
258_W	275_E	1.767	1.00
21_H	25_D	1.758	1.00
67_E	204_E	1.745	1.00
22_Y	26_K	1.734	1.00
82_M	197_G	1.728	1.00
237_R	288_I	1.710	1.00
20_A	38_L	1.674	1.00
97_T	220_N	1.626	1.00
274_G	297_N	1.613	1.00
71_L	93_L	1.583	1.00
292_E	296_N	1.581	1.00
105_R	186_A	1.577	1.00
75_A	78_A	1.568	1.00
210_S	214_E	1.557	1.00
4_N	211_R	1.554	1.00
114_D	118_A	1.541	1.00
188_P	191_I	1.536	1.00
17_L	40_P	1.530	1.00
153_G	179_L	1.515	1.00
42_V	47_V	1.509	1.00
270_Q	301_E	1.487	1.00
196_V	248_S	1.477	1.00
227_R	252_L	1.476	1.00
21_H	24_K	1.458	1.00
139_R	191_I	1.452	1.00
10_T	38_L	1.438	1.00
247_G	262_L	1.435	1.00
98_I	200_A	1.433	1.00
209_D	212_T	1.432	1.00
31_H	218_A	1.429	1.00
205_C	213_R	1.421	1.00
28_M	35_V	1.404	1.00
69_A	74_R	1.400	1.00
229_T	284_E	1.396	1.00
7_R	37_E	1.395	1.00
105_R	171_V	1.394	1.00
117_D	191_I	1.390	1.00
137_A	145_I	1.381	1.00
282_D	285_Q	1.375	1.00
276_R	289_S	1.351	1.00
125_V	166_A	1.350	1.00
175_K	180_E	1.340	1.00
96_V	213_R	1.339	1.00
222_H	226_L	1.332	1.00
24_K	36_V	1.321	1.00
293_E	297_N	1.314	1.00
234_M	290_L	1.311	1.00
288_I	292_E	1.294	1.00
103_D	171_V	1.293	1.00
82_M	202_G	1.282	1.00
251_E	258_W	1.279	1.00
230_A	259_L	1.257	1.00
18_W	22_Y	1.253	1.00
289_S	293_E	1.252	1.00
8_I	77_I	1.244	1.00
146_R	163_E	1.240	1.00
107_A	171_V	1.235	1.00
41_M	66_L	1.234	1.00
251_E	260_R	1.234	1.00
133_Q	147_S	1.229	1.00
6_L	212_T	1.229	1.00
25_D	29_A	1.228	1.00
185_A	191_I	1.227	1.00
187_L	192_S	1.226	1.00
285_Q	289_S	1.222	1.00
212_T	216_L	1.219	1.00
20_A	24_K	1.217	1.00
117_D	185_A	1.216	1.00
158_K	163_E	1.211	1.00
264_G	271_I	1.203	1.00
260_R	273_R	1.185	0.99
82_M	228_V	1.184	0.99
110_S	184_R	1.184	0.99
109_V	156_L	1.173	0.99
39_V	74_R	1.172	0.99
164_Y	167_I	1.167	0.99
125_V	136_L	1.165	0.99
171_V	175_K	1.164	0.99
134_C	264_G	1.164	0.99
294_L	299_A	1.157	0.99
133_Q	145_I	1.152	0.99
95_L	202_G	1.150	0.99
226_L	280_P	1.133	0.99
287_G	291_A	1.117	0.99
234_M	294_L	1.116	0.99
109_V	174_L	1.115	0.99
253_I	258_W	1.112	0.99
115_S	185_A	1.109	0.99
234_M	259_L	1.106	0.99
179_L	182_R	1.102	0.99
41_M	69_A	1.102	0.99
295_L	300_R	1.102	0.99
138_E	271_I	1.101	0.99
214_E	217_A	1.091	0.99
237_R	295_L	1.080	0.99
284_E	288_I	1.076	0.99
28_M	36_V	1.074	0.99
236_T	284_E	1.074	0.99
278_G	283_A	1.070	0.99
17_L	21_H	1.061	0.99
159_L	167_I	1.061	0.99
253_I	277_R	1.058	0.99
205_C	216_L	1.054	0.99
223_E	280_P	1.042	0.99
25_D	28_M	1.038	0.99
23_V	99_C	1.032	0.99
89_F	204_E	1.024	0.98
33_G	36_V	0.991	0.98
12_Q	41_M	0.987	0.98
8_I	20_A	0.986	0.98
98_I	228_V	0.982	0.98
230_A	257_I	0.980	0.98
7_R	73_N	0.979	0.98
49_L	153_G	0.973	0.98
183_I	186_A	0.973	0.98
233_A	237_R	0.969	0.98
259_L	290_L	0.963	0.98
52_P	147_S	0.963	0.98
279_A	282_D	0.959	0.98
103_D	186_A	0.953	0.98
85_V	202_G	0.951	0.98
180_E	183_I	0.949	0.97
69_A	75_A	0.948	0.97
119_L	123_S	0.948	0.97
125_V	143_L	0.940	0.97
285_Q	288_I	0.940	0.97
136_L	143_L	0.937	0.97
21_H	38_L	0.934	0.97
110_S	113_Y	0.934	0.97
8_I	36_V	0.933	0.97
171_V	183_I	0.930	0.97
67_E	93_L	0.930	0.97
283_A	287_G	0.924	0.97
122_G	143_L	0.922	0.97
152_V	169_L	0.922	0.97
193_L	247_G	0.921	0.97
124_I	164_Y	0.917	0.97
223_E	227_R	0.908	0.97
153_G	157_S	0.907	0.97
152_V	179_L	0.900	0.97
248_S	259_L	0.899	0.97
44_R	48_I	0.897	0.96
93_L	204_E	0.894	0.96
272_I	302_I	0.893	0.96
261_A	290_L	0.888	0.96
103_D	175_K	0.888	0.96
240_G	246_I	0.883	0.96
104_P	249_Y	0.881	0.96
262_L	273_R	0.872	0.96
213_R	217_A	0.866	0.96
123_S	140_R	0.863	0.96
117_D	139_R	0.859	0.96
253_I	256_E	0.850	0.95
134_C	268_G	0.848	0.95
120_P	123_S	0.844	0.95
53_L	58_G	0.843	0.95
59_K	65_E	0.840	0.95
94_G	205_C	0.838	0.95
175_K	186_A	0.834	0.95
193_L	260_R	0.834	0.95
210_S	213_R	0.827	0.94
169_L	173_G	0.826	0.94
138_E	273_R	0.825	0.94
140_R	143_L	0.821	0.94
56_V	61_L	0.820	0.94
114_D	184_R	0.817	0.94
39_V	75_A	0.816	0.94
51_T	55_K	0.815	0.94
44_R	56_V	0.810	0.94
90_P	93_L	0.805	0.94
82_M	95_L	0.803	0.94
123_S	143_L	0.803	0.94
76_D	206_R	0.801	0.93
121_A	144_I	0.801	0.93
200_A	224_T	0.799	0.93
10_T	16_A	0.793	0.93
262_L	271_I	0.793	0.93
6_L	36_V	0.793	0.93
121_A	142_D	0.792	0.93
136_L	145_I	0.792	0.93
12_Q	17_L	0.789	0.93
91_Q	207_L	0.788	0.93
252_L	280_P	0.779	0.93
226_L	283_A	0.779	0.93
116_L	185_A	0.775	0.92
24_K	38_L	0.774	0.92
108_F	111_N	0.773	0.92
22_Y	201_V	0.767	0.92
238_L	261_A	0.763	0.92
27_L	34_L	0.762	0.92
111_N	160_D	0.760	0.92
105_R	188_P	0.758	0.91
293_E	296_N	0.757	0.91
233_A	284_E	0.757	0.91
15_L	152_V	0.756	0.91
63_V	93_L	0.750	0.91
14_P	18_W	0.749	0.91
63_V	87_V	0.749	0.91
6_L	77_I	0.748	0.91
265_A	270_Q	0.747	0.91
289_S	292_E	0.745	0.91
187_L	191_I	0.741	0.91
57_G	61_L	0.741	0.91
53_L	61_L	0.740	0.90
238_L	246_I	0.738	0.90
276_R	286_M	0.737	0.90
137_A	144_I	0.737	0.90
107_A	174_L	0.733	0.90
53_L	57_G	0.732	0.90
189_P	249_Y	0.732	0.90
82_M	98_I	0.728	0.90
227_R	250_A	0.727	0.90
234_M	291_A	0.727	0.90
44_R	65_E	0.727	0.90
215_L	218_A	0.725	0.90
135_Q	193_L	0.725	0.90
123_S	142_D	0.722	0.89
108_F	166_A	0.721	0.89
224_T	228_V	0.721	0.89
217_A	220_N	0.719	0.89
126_G	164_Y	0.716	0.89
148_L	164_Y	0.715	0.89
98_I	225_A	0.704	0.88
9_A	39_V	0.696	0.88
44_R	47_V	0.696	0.88
193_L	249_Y	0.694	0.87
87_V	134_C	0.693	0.87
234_M	248_S	0.692	0.87
17_L	38_L	0.691	0.87
105_R	189_P	0.688	0.87
264_G	273_R	0.684	0.87
194_P	249_Y	0.683	0.87
67_E	89_F	0.680	0.86
26_K	100_E	0.680	0.86
208_D	213_R	0.680	0.86
227_R	251_E	0.679	0.86
97_T	216_L	0.679	0.86
274_G	294_L	0.679	0.86
22_Y	99_C	0.677	0.86
18_W	21_H	0.675	0.86
223_E	252_L	0.675	0.86
270_Q	297_N	0.675	0.86
265_A	268_G	0.674	0.86
233_A	288_I	0.674	0.86
67_E	85_V	0.673	0.86
233_A	287_G	0.670	0.86
157_S	160_D	0.668	0.85
190_E	260_R	0.668	0.85
257_I	286_M	0.668	0.85
7_R	76_D	0.667	0.85
70_L	73_N	0.667	0.85
101_R	227_R	0.665	0.85
23_V	219_L	0.663	0.85
64_K	67_E	0.663	0.85
21_H	40_P	0.663	0.85
196_V	235_N	0.661	0.85
255_G	281_Q	0.660	0.85
87_V	235_N	0.657	0.84
27_L	215_L	0.655	0.84
135_Q	192_S	0.652	0.84
87_V	241_G	0.650	0.84
67_E	70_L	0.650	0.84
77_I	216_L	0.650	0.84
15_L	102_E	0.650	0.84
31_H	215_L	0.650	0.84
18_W	201_V	0.649	0.84
172_A	201_V	0.649	0.84
112_N	165_D	0.648	0.84
226_L	252_L	0.647	0.84
108_F	116_L	0.647	0.84
159_L	164_Y	0.645	0.83
27_L	36_V	0.644	0.83
73_N	208_D	0.643	0.83
108_F	184_R	0.640	0.83
97_T	205_C	0.639	0.83
23_V	203_I	0.638	0.83
139_R	187_L	0.634	0.82
20_A	77_I	0.633	0.82
116_L	119_L	0.633	0.82
120_P	140_R	0.631	0.82
71_L	92_G	0.629	0.82
156_L	160_D	0.628	0.82
272_I	294_L	0.627	0.82
139_R	142_D	0.626	0.82
77_I	205_C	0.626	0.82
108_F	113_Y	0.625	0.81
10_T	40_P	0.625	0.81
34_L	215_L	0.619	0.81
230_A	283_A	0.615	0.80
93_L	206_R	0.613	0.80
255_G	280_P	0.611	0.80
159_L	166_A	0.610	0.80
51_T	54_A	0.606	0.79
41_M	153_G	0.606	0.79
23_V	97_T	0.605	0.79
197_G	200_A	0.604	0.79
107_A	183_I	0.602	0.79
22_Y	25_D	0.601	0.79
241_G	244_V	0.601	0.79
66_L	99_C	0.601	0.79
20_A	36_V	0.600	0.79
211_R	214_E	0.599	0.79
283_A	286_M	0.598	0.79
52_P	55_K	0.597	0.78
43_T	65_E	0.596	0.78
207_L	213_R	0.595	0.78
61_L	240_G	0.593	0.78
251_E	254_D	0.592	0.78
193_L	262_L	0.591	0.78
32_P	36_V	0.591	0.78
102_E	170_A	0.590	0.78
64_K	71_L	0.589	0.77
59_K	67_E	0.585	0.77
156_L	159_L	0.582	0.77
256_E	279_A	0.580	0.76
230_A	287_G	0.579	0.76
11_R	15_L	0.579	0.76
278_G	282_D	0.579	0.76
50_D	56_V	0.577	0.76
102_E	172_A	0.577	0.76
229_T	283_A	0.576	0.76
152_V	173_G	0.575	0.76
55_K	243_Q	0.574	0.76
156_L	174_L	0.573	0.76
12_Q	43_T	0.572	0.75
162_G	166_A	0.572	0.75
153_G	177_L	0.571	0.75
122_G	140_R	0.571	0.75
272_I	298_G	0.571	0.75
56_V	63_V	0.570	0.75
78_A	194_P	0.570	0.75
41_M	75_A	0.568	0.75
48_I	56_V	0.568	0.75
64_K	69_A	0.568	0.75
238_L	263_V	0.567	0.75
14_P	177_L	0.562	0.74
119_L	125_V	0.562	0.74
136_L	168_I	0.562	0.74
126_G	162_G	0.560	0.74
298_G	302_I	0.560	0.74
239_E	246_I	0.560	0.74
239_E	300_R	0.555	0.73
54_A	243_Q	0.555	0.73
51_T	56_V	0.554	0.73
59_K	244_V	0.553	0.73
18_W	174_L	0.550	0.73
9_A	41_M	0.550	0.73
121_A	140_R	0.550	0.73
272_I	290_L	0.549	0.72
11_R	16_A	0.549	0.72
89_F	93_L	0.547	0.72
194_P	250_A	0.546	0.72
58_G	63_V	0.546	0.72
278_G	290_L	0.545	0.72
48_I	61_L	0.544	0.72
244_V	298_G	0.543	0.72
64_K	68_V	0.542	0.71
239_E	261_A	0.542	0.71
168_I	192_S	0.540	0.71
47_V	51_T	0.540	0.71
223_E	226_L	0.539	0.71
49_L	52_P	0.539	0.71
49_L	130_L	0.538	0.71
119_L	166_A	0.538	0.71
226_L	257_I	0.538	0.71
249_Y	260_R	0.537	0.71
107_A	186_A	0.536	0.71
284_E	287_G	0.536	0.71
81_S	202_G	0.534	0.70
88_E	236_T	0.534	0.70
295_L	299_A	0.534	0.70
32_P	215_L	0.533	0.70
128_S	147_S	0.533	0.70
290_L	293_E	0.533	0.70
261_A	291_A	0.533	0.70
127_T	133_Q	0.533	0.70
248_S	287_G	0.532	0.70
49_L	60_G	0.532	0.70
36_V	77_I	0.530	0.70
64_K	90_P	0.529	0.70
243_Q	246_I	0.527	0.69
28_M	32_P	0.525	0.69
135_Q	262_L	0.523	0.69
57_G	60_G	0.522	0.69
290_L	297_N	0.521	0.69
214_E	218_A	0.520	0.68
226_L	278_G	0.517	0.68
77_I	212_T	0.516	0.68
14_P	21_H	0.516	0.68
18_W	152_V	0.515	0.68
63_V	197_G	0.513	0.67
261_A	287_G	0.511	0.67
111_N	184_R	0.510	0.67
23_V	26_K	0.507	0.66
4_N	212_T	0.506	0.66
128_S	172_A	0.505	0.66
51_T	243_Q	0.505	0.66
63_V	66_L	0.505	0.66
81_S	170_A	0.504	0.66
70_L	204_E	0.503	0.66
10_T	20_A	0.500	0.65
110_S	166_A	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
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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
1gtkA	1	0.9393	100	0.012	Contact Map
4mlvA	1	0.9137	100	0.034	Contact Map
3ecrA	1	0.9297	100	0.036	Contact Map
4htgA	2	0.9393	100	0.042	Contact Map
4gotA	1	0.6805	97.5	0.928	Contact Map
3un6A	1	0.8339	97.3	0.93	Contact Map
4qhqA	1	0.6486	97.2	0.932	Contact Map
1xs5A	1	0.6677	97.1	0.933	Contact Map
4ef1A	1	0.6741	97	0.934	Contact Map
4ntlA	1	0.6645	97	0.934	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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