PFLA - ECOLI - GREMLIN Contacts

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PFLA - Pyruvate formate-lyase 1-activating enzyme

UniProt:	P0A9N4	Sequences: MSVIGRIHSFESCGTVDGPGIRFITFFQGCLMRCLYCHNRDTWDTHGGKEVTVEDLMKEVVTYRHFMNASGGGVTASGGEAILQAEFVRDWFRACKKEGIHTCLDTNGFVRRYDPVIDELLEVTDLVMLDLKQMNDEIHQNLVGVSNHRTLEFAKYLANKNVKVWIRYVVVPGWSDDDDSAHRLGEFTRDMGNVEKIELLPYHELGKHKWVAMGEEYKLDGVKPPKKETMERVKGILEQYGHKVMF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10028
Length:	246 (217)
Sequences:	4038 (3053)
Seq/√Len:	207.3

ECOLI - PFLA PFLC PFLE YJJW NRDG
SULSO - Q7LXQ2

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_V	98_E	4.181	1.00
74_V	95_C	3.182	1.00
136_D	146_S	2.928	1.00
76_A	88_V	2.840	1.00
168_Y	197_I	2.800	1.00
93_R	123_V	2.730	1.00
94_A	97_K	2.545	1.00
92_F	102_T	2.532	1.00
136_D	148_H	2.453	1.00
53_V	94_A	2.410	1.00
96_K	125_D	2.328	1.00
89_R	119_E	2.293	1.00
54_E	94_A	2.210	1.00
129_L	154_A	2.207	1.00
166_I	188_T	2.203	1.00
76_A	102_T	2.147	1.00
25_T	56_L	2.046	1.00
94_A	98_E	2.045	1.00
8_H	42_T	2.008	1.00
140_Q	146_S	1.970	1.00
108_G	129_L	1.954	1.00
127_V	157_L	1.953	1.00
138_I	180_S	1.883	1.00
31_L	107_N	1.881	1.00
155_K	190_D	1.866	1.00
118_D	156_Y	1.863	1.00
163_K	195_E	1.858	1.00
138_I	141_N	1.845	1.00
148_H	152_E	1.818	1.00
155_K	159_N	1.775	1.00
76_A	91_W	1.756	1.00
35_L	218_K	1.721	1.00
158_A	192_G	1.684	1.00
152_E	155_K	1.673	1.00
178_D	182_H	1.663	1.00
142_L	174_W	1.640	1.00
76_A	92_F	1.635	1.00
156_Y	160_K	1.631	1.00
89_R	93_R	1.612	1.00
226_K	229_T	1.593	1.00
32_M	109_F	1.589	1.00
183_R	186_E	1.555	1.00
127_V	162_V	1.553	1.00
54_E	58_K	1.550	1.00
112_R	152_E	1.544	1.00
216_E	220_D	1.541	1.00
112_R	156_Y	1.536	1.00
179_D	183_R	1.526	1.00
57_M	95_C	1.507	1.00
23_F	59_E	1.498	1.00
7_I	27_F	1.481	1.00
81_A	104_L	1.460	1.00
118_D	160_K	1.442	1.00
57_M	94_A	1.434	1.00
139_H	147_N	1.429	1.00
101_H	126_L	1.422	1.00
177_D	180_S	1.410	1.00
11_E	14_G	1.408	1.00
92_F	124_T	1.406	1.00
131_L	154_A	1.385	1.00
133_Q	138_I	1.380	1.00
168_Y	184_L	1.363	1.00
135_N	183_R	1.362	1.00
178_D	229_T	1.354	1.00
154_A	166_I	1.350	1.00
32_M	107_N	1.326	1.00
88_V	104_L	1.314	1.00
26_F	79_G	1.286	1.00
35_L	141_N	1.279	1.00
134_M	187_F	1.258	1.00
182_H	186_E	1.242	1.00
61_V	64_R	1.233	1.00
111_R	116_V	1.231	1.00
27_F	76_A	1.228	1.00
51_V	56_L	1.220	1.00
60_V	95_C	1.216	1.00
164_V	193_N	1.210	1.00
104_L	127_V	1.200	1.00
134_M	183_R	1.183	1.00
134_M	180_S	1.176	1.00
173_G	222_V	1.158	1.00
165_W	196_K	1.154	1.00
22_R	75_T	1.139	1.00
59_E	62_T	1.134	1.00
52_T	55_D	1.131	1.00
106_T	129_L	1.131	1.00
82_I	110_V	1.124	1.00
112_R	118_D	1.118	1.00
211_V	220_D	1.108	1.00
31_L	109_F	1.102	1.00
157_L	164_V	1.101	1.00
22_R	73_G	1.095	1.00
133_Q	142_L	1.090	1.00
95_C	100_I	1.089	1.00
7_I	51_V	1.088	1.00
133_Q	180_S	1.088	1.00
170_V	199_L	1.080	1.00
225_P	229_T	1.075	1.00
93_R	119_E	1.073	1.00
53_V	91_W	1.072	1.00
64_R	68_N	1.061	1.00
192_G	195_E	1.060	1.00
137_E	141_N	1.059	1.00
81_A	88_V	1.056	1.00
31_L	83_L	1.055	1.00
151_L	187_F	1.053	1.00
38_H	105_D	1.050	1.00
96_K	123_V	1.044	1.00
128_M	167_R	1.043	1.00
156_Y	159_N	1.040	1.00
139_H	150_T	1.040	1.00
119_E	122_E	1.034	1.00
188_T	197_I	1.028	1.00
155_K	187_F	1.012	1.00
117_I	153_F	1.012	1.00
55_D	58_K	1.009	1.00
154_A	191_M	1.005	1.00
19_P	126_L	0.998	1.00
52_T	87_F	0.996	1.00
124_T	127_V	0.992	1.00
223_K	227_K	0.988	1.00
93_R	97_K	0.977	1.00
109_F	149_R	0.977	1.00
57_M	61_V	0.972	1.00
49_K	55_D	0.971	1.00
110_V	116_V	0.950	0.99
185_G	199_L	0.946	0.99
89_R	123_V	0.945	0.99
85_A	116_V	0.939	0.99
24_I	77_S	0.937	0.99
138_I	177_D	0.934	0.99
105_D	128_M	0.934	0.99
33_R	43_W	0.930	0.99
45_T	83_L	0.929	0.99
174_W	211_V	0.928	0.99
131_L	184_L	0.921	0.99
204_E	207_K	0.911	0.99
88_V	92_F	0.905	0.99
115_P	118_D	0.900	0.99
18_G	22_R	0.885	0.99
18_G	101_H	0.885	0.99
43_W	215_E	0.884	0.99
121_L	160_K	0.881	0.99
154_A	187_F	0.880	0.99
168_Y	180_S	0.877	0.99
178_D	221_G	0.871	0.99
61_V	100_I	0.870	0.99
170_V	181_A	0.868	0.99
56_L	91_W	0.865	0.99
60_V	74_V	0.862	0.99
26_F	39_N	0.861	0.99
148_H	151_L	0.851	0.99
186_E	189_R	0.850	0.99
158_A	164_V	0.849	0.99
57_M	60_V	0.841	0.99
49_K	59_E	0.839	0.99
158_A	191_M	0.837	0.99
18_G	73_G	0.836	0.99
109_F	145_V	0.830	0.99
59_E	63_Y	0.820	0.98
223_K	229_T	0.818	0.98
121_L	162_V	0.818	0.98
82_I	107_N	0.817	0.98
56_L	87_F	0.812	0.98
108_G	153_F	0.810	0.98
96_K	102_T	0.809	0.98
60_V	91_W	0.804	0.98
82_I	104_L	0.804	0.98
122_E	160_K	0.802	0.98
95_C	102_T	0.800	0.98
118_D	122_E	0.800	0.98
35_L	142_L	0.799	0.98
53_V	90_D	0.799	0.98
101_H	125_D	0.797	0.98
182_H	228_E	0.790	0.98
53_V	57_M	0.787	0.98
147_N	151_L	0.786	0.98
187_F	191_M	0.785	0.98
51_V	55_D	0.776	0.98
102_T	124_T	0.775	0.98
14_G	24_I	0.768	0.98
175_S	180_S	0.761	0.97
135_N	180_S	0.760	0.97
176_D	229_T	0.758	0.97
27_F	84_Q	0.755	0.97
180_S	184_L	0.754	0.97
35_L	174_W	0.752	0.97
57_M	98_E	0.751	0.97
103_C	126_L	0.750	0.97
105_D	165_W	0.749	0.97
172_P	176_D	0.747	0.97
35_L	143_V	0.743	0.97
207_K	221_G	0.741	0.97
85_A	89_R	0.739	0.97
89_R	120_L	0.735	0.97
36_Y	171_V	0.729	0.97
218_K	221_G	0.728	0.97
27_F	81_A	0.724	0.97
32_M	150_T	0.724	0.97
207_K	220_D	0.724	0.97
7_I	25_T	0.723	0.97
179_D	182_H	0.716	0.96
152_E	156_Y	0.716	0.96
215_E	218_K	0.711	0.96
36_Y	41_D	0.709	0.96
58_K	61_V	0.708	0.96
147_N	150_T	0.705	0.96
45_T	48_G	0.704	0.96
12_S	63_Y	0.704	0.96
11_E	24_I	0.697	0.96
124_T	162_V	0.694	0.96
137_E	140_Q	0.693	0.96
133_Q	143_V	0.693	0.96
188_T	191_M	0.692	0.96
63_Y	67_M	0.691	0.96
86_E	116_V	0.689	0.95
36_Y	142_L	0.689	0.95
186_E	229_T	0.688	0.95
136_D	147_N	0.687	0.95
155_K	191_M	0.685	0.95
185_G	189_R	0.684	0.95
168_Y	181_A	0.684	0.95
22_R	103_C	0.681	0.95
103_C	128_M	0.672	0.95
118_D	159_N	0.669	0.95
86_E	119_E	0.667	0.95
31_L	110_V	0.666	0.95
82_I	120_L	0.662	0.94
26_F	38_H	0.659	0.94
182_H	185_G	0.658	0.94
121_L	156_Y	0.658	0.94
157_L	160_K	0.657	0.94
10_F	23_F	0.657	0.94
32_M	145_V	0.656	0.94
138_I	171_V	0.655	0.94
189_R	195_E	0.654	0.94
75_T	103_C	0.654	0.94
171_V	175_S	0.650	0.94
36_Y	169_V	0.649	0.94
202_Y	207_K	0.647	0.94
136_D	140_Q	0.646	0.94
33_R	144_G	0.640	0.93
168_Y	199_L	0.634	0.93
39_N	130_D	0.633	0.93
91_W	94_A	0.633	0.93
120_L	123_V	0.633	0.93
8_H	41_D	0.628	0.93
60_V	63_Y	0.624	0.92
133_Q	174_W	0.622	0.92
57_M	91_W	0.622	0.92
155_K	158_A	0.622	0.92
129_L	153_F	0.620	0.92
165_W	198_E	0.619	0.92
25_T	74_V	0.619	0.92
146_S	149_R	0.618	0.92
126_L	165_W	0.617	0.92
92_F	123_V	0.617	0.92
206_G	217_Y	0.615	0.92
134_M	151_L	0.614	0.92
133_Q	175_S	0.614	0.92
158_A	193_N	0.607	0.91
138_I	174_W	0.606	0.91
108_G	154_A	0.605	0.91
106_T	127_V	0.604	0.91
60_V	100_I	0.602	0.91
92_F	120_L	0.601	0.91
109_F	146_S	0.597	0.91
90_D	94_A	0.592	0.90
10_F	56_L	0.585	0.90
210_W	217_Y	0.582	0.90
60_V	67_M	0.581	0.90
149_R	152_E	0.574	0.89
172_P	222_V	0.574	0.89
184_L	197_I	0.573	0.89
111_R	149_R	0.569	0.89
14_G	22_R	0.568	0.89
139_H	143_V	0.565	0.88
76_A	81_A	0.563	0.88
189_R	197_I	0.562	0.88
58_K	98_E	0.562	0.88
53_V	60_V	0.561	0.88
10_F	59_E	0.560	0.88
25_T	60_V	0.556	0.87
23_F	63_Y	0.556	0.87
22_R	26_F	0.555	0.87
12_S	59_E	0.554	0.87
172_P	202_Y	0.554	0.87
105_D	167_R	0.554	0.87
202_Y	210_W	0.553	0.87
169_V	200_L	0.553	0.87
27_F	79_G	0.553	0.87
120_L	124_T	0.553	0.87
85_A	119_E	0.552	0.87
13_C	21_I	0.551	0.87
154_A	164_V	0.549	0.87
8_H	11_E	0.547	0.87
80_E	107_N	0.546	0.87
121_L	124_T	0.545	0.86
64_R	98_E	0.543	0.86
56_L	60_V	0.539	0.86
104_L	120_L	0.538	0.86
54_E	61_V	0.536	0.86
8_H	28_Q	0.535	0.85
167_R	200_L	0.534	0.85
168_Y	188_T	0.533	0.85
67_M	100_I	0.533	0.85
188_T	194_V	0.533	0.85
34_C	37_C	0.525	0.84
57_M	67_M	0.523	0.84
129_L	157_L	0.522	0.84
185_G	197_I	0.521	0.84
30_C	34_C	0.521	0.84
129_L	166_I	0.520	0.84
145_V	150_T	0.520	0.84
38_H	205_L	0.514	0.83
87_F	90_D	0.514	0.83
11_E	15_T	0.512	0.83
53_V	61_V	0.512	0.83
44_D	47_G	0.511	0.83
86_E	89_R	0.511	0.83
181_A	199_L	0.511	0.83
9_S	12_S	0.510	0.83
25_T	91_W	0.510	0.83
117_I	122_E	0.508	0.82
223_K	226_K	0.503	0.82
119_E	123_V	0.500	0.81

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
3c8fA	1	0.9878	100	0.404	Contact Map
3canA	2	0.6341	100	0.574	Contact Map
3rfaA	1	0.9106	100	0.604	Contact Map
2yx0A	1	0.9187	100	0.615	Contact Map
2z2uA	1	0.8211	100	0.624	Contact Map
4njhA	2	0.7602	99.9	0.648	Contact Map
1tv8A	2	0.9024	99.9	0.654	Contact Map
1oltA	1	0.9797	99.9	0.665	Contact Map
4u0oB	1	0.9146	99.9	0.675	Contact Map
2qgqA	1	0.8008	99.9	0.684	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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