ALF1 - ECOLI - GREMLIN Contacts

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ALF1 - Fructose-bisphosphate aldolase class 1

UniProt:	P0A991	Sequences: MTDIAQLLGKDADNLLQHRCMTIPSDQLYLPGHDYVDRVMIDNNRPPAVLRNMQTLYNTGRLAGTGYLSILPVDQGVEHSAGASFAANPLYFDPKNIVELAIEAGCNCVASTYGVLASVSRRYAHRIPFLVKLNHNETLSYPNTYDQTLYASVEQAFNMGAVAVGATIYFGSEESRRQIEEISAAFERAHELGMVTVLWAYLRNSAFKKDGVDYHVSADLTGQANHLAATIGADIVKQKMAENNGGYKAINYGYTDDRVYSKLTSENPIDLVRYQLANCYMGRAGLINSGGAAGGETDLSDAVRTAVINKRAGGMGLILGRKAFKKSMADGVKLINAVQDVYLDSKITIA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14062
Length:	350 (301)
Sequences:	408 (196)
Seq/√Len:	11.3

ECOLI - ALF1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
163_A	195_V	5.364	1.00
149_L	182_I	5.064	1.00
130_L	197_V	4.828	1.00
319_L	338_V	4.777	1.00
216_V	242_E	4.152	0.99
277_A	281_M	4.007	0.99
200_A	228_A	3.776	0.99
327_S	330_D	3.566	0.98
154_E	188_R	3.321	0.97
34_D	38_R	3.041	0.95
306_A	314_G	2.924	0.94
87_A	256_D	2.747	0.92
248_K	257_D	2.706	0.91
164_V	185_A	2.539	0.88
113_Y	155_Q	2.518	0.88
80_S	247_Y	2.468	0.87
59_T	63_A	2.449	0.86
188_R	191_E	2.443	0.86
82_G	274_Y	2.438	0.86
51_R	55_T	2.428	0.86
131_V	161_A	2.391	0.85
47_P	120_S	2.389	0.85
258_R	262_K	2.289	0.82
58_N	64_G	2.278	0.82
148_T	176_R	2.257	0.81
256_D	261_S	2.244	0.81
48_A	55_T	2.210	0.80
236_V	279_C	2.196	0.79
182_I	198_L	2.158	0.78
270_D	273_R	2.123	0.77
240_M	301_D	2.092	0.76
264_T	270_D	2.075	0.75
40_M	284_A	2.072	0.75
296_E	330_D	2.060	0.75
131_V	151_A	2.015	0.73
111_S	159_M	1.977	0.71
36_V	54_Q	1.935	0.70
52_N	162_V	1.917	0.69
240_M	272_V	1.910	0.69
299_L	333_K	1.909	0.69
258_R	261_S	1.883	0.67
335_I	338_V	1.856	0.66
113_Y	151_A	1.853	0.66
229_A	236_V	1.838	0.66
329_A	333_K	1.823	0.65
140_S	144_T	1.753	0.62
52_N	195_V	1.749	0.61
48_A	157_F	1.742	0.61
95_K	122_R	1.727	0.60
240_M	314_G	1.690	0.59
200_A	236_V	1.674	0.58
108_C	197_V	1.660	0.57
155_Q	158_N	1.656	0.57
104_A	335_I	1.655	0.57
57_Y	284_A	1.648	0.57
151_A	155_Q	1.639	0.56
56_L	108_C	1.611	0.55
104_A	338_V	1.591	0.54
40_M	118_S	1.580	0.53
104_A	319_L	1.574	0.53
257_D	261_S	1.560	0.52
151_A	232_G	1.546	0.52
229_A	279_C	1.539	0.51
95_K	99_E	1.533	0.51
152_S	187_E	1.514	0.50
55_T	162_V	1.494	0.49
52_N	55_T	1.475	0.48
217_S	243_N	1.461	0.48
44_N	48_A	1.445	0.47
146_D	181_E	1.440	0.47
117_A	232_G	1.433	0.46
133_L	153_V	1.393	0.44
45_R	49_V	1.385	0.44
319_L	335_I	1.381	0.44
297_T	326_K	1.378	0.44
208_K	215_H	1.377	0.44
287_I	315_M	1.368	0.43
247_Y	257_D	1.367	0.43
48_A	131_V	1.364	0.43
272_V	312_A	1.358	0.43
87_A	258_R	1.356	0.43
113_Y	183_S	1.326	0.41
146_D	174_E	1.325	0.41
113_Y	152_S	1.313	0.41
300_S	326_K	1.308	0.40
45_R	234_D	1.291	0.40
187_E	232_G	1.281	0.39
53_M	326_K	1.280	0.39
173_E	332_V	1.278	0.39
151_A	180_E	1.274	0.39
35_Y	38_R	1.252	0.38
208_K	246_G	1.252	0.38
220_L	247_Y	1.237	0.37
205_S	292_A	1.217	0.36
44_N	117_A	1.208	0.36
131_V	149_L	1.205	0.36
118_S	283_R	1.204	0.36
144_T	176_R	1.196	0.35
44_N	232_G	1.195	0.35
35_Y	57_Y	1.190	0.35
146_D	178_Q	1.176	0.34
40_M	57_Y	1.175	0.34
216_V	292_A	1.164	0.34
145_Y	173_E	1.159	0.34
200_A	241_A	1.158	0.34
166_A	186_F	1.145	0.33
36_V	41_I	1.137	0.33
56_L	345_S	1.134	0.32
59_T	108_C	1.127	0.32
248_K	261_S	1.125	0.32
216_V	243_N	1.119	0.32
46_P	113_Y	1.118	0.32
48_A	51_R	1.113	0.32
295_G	298_D	1.110	0.31
48_A	158_N	1.110	0.31
256_D	259_V	1.106	0.31
151_A	187_E	1.099	0.31
200_A	229_A	1.099	0.31
68_L	107_N	1.095	0.31
90_L	329_A	1.090	0.31
108_C	304_R	1.089	0.31
296_E	334_L	1.083	0.30
39_V	113_Y	1.048	0.29
104_A	292_A	1.047	0.29
228_A	232_G	1.042	0.29
99_E	328_M	1.041	0.29
56_L	99_E	1.040	0.29
47_P	345_S	1.027	0.28
259_V	272_V	1.026	0.28
207_F	221_T	1.019	0.28
53_M	195_V	1.019	0.28
98_V	111_S	1.010	0.27
258_R	264_T	1.009	0.27
57_Y	315_M	1.009	0.27
216_V	344_D	1.003	0.27
323_A	335_I	1.000	0.27
168_I	236_V	0.989	0.27
55_T	188_R	0.983	0.26
173_E	205_S	0.981	0.26
305_T	310_K	0.981	0.26
240_M	305_T	0.979	0.26
229_A	280_Y	0.974	0.26
99_E	103_E	0.971	0.26
228_A	236_V	0.970	0.26
301_D	305_T	0.970	0.26
256_D	262_K	0.967	0.26
164_V	182_I	0.967	0.26
67_Y	278_N	0.966	0.26
57_Y	68_L	0.963	0.26
117_A	158_N	0.957	0.25
61_R	283_R	0.954	0.25
205_S	344_D	0.953	0.25
151_A	183_S	0.946	0.25
228_A	241_A	0.945	0.25
35_Y	281_M	0.944	0.25
155_Q	159_M	0.944	0.25
44_N	155_Q	0.940	0.25
323_A	327_S	0.936	0.25
46_P	49_V	0.922	0.24
58_N	195_V	0.920	0.24
33_H	262_K	0.918	0.24
287_I	334_L	0.910	0.24
325_K	338_V	0.906	0.24
205_S	208_K	0.904	0.23
62_L	65_T	0.900	0.23
135_H	230_T	0.899	0.23
58_N	262_K	0.899	0.23
133_L	197_V	0.894	0.23
48_A	228_A	0.892	0.23
225_N	279_C	0.890	0.23
152_S	188_R	0.886	0.23
155_Q	180_E	0.886	0.23
149_L	185_A	0.882	0.23
83_A	179_I	0.880	0.23
197_V	276_L	0.880	0.23
274_Y	277_A	0.873	0.22
106_C	339_Q	0.870	0.22
35_Y	42_D	0.865	0.22
37_D	126_R	0.856	0.22
102_I	299_L	0.854	0.22
145_Y	257_D	0.853	0.22
202_L	215_H	0.850	0.22
56_L	68_L	0.850	0.22
329_A	345_S	0.847	0.22
202_L	232_G	0.846	0.22
46_P	155_Q	0.845	0.21
57_Y	272_V	0.841	0.21
326_K	336_N	0.840	0.21
54_Q	262_K	0.840	0.21
107_N	210_D	0.838	0.21
108_C	130_L	0.837	0.21
148_T	180_E	0.835	0.21
240_M	312_A	0.834	0.21
173_E	206_A	0.834	0.21
113_Y	131_V	0.833	0.21
218_A	222_G	0.830	0.21
299_L	303_V	0.829	0.21
148_T	163_A	0.827	0.21
162_V	195_V	0.825	0.21
40_M	52_N	0.821	0.21
40_M	232_G	0.820	0.21
260_Y	277_A	0.819	0.21
48_A	155_Q	0.819	0.21
58_N	68_L	0.817	0.21
289_S	318_I	0.817	0.21
48_A	52_N	0.816	0.21
217_S	258_R	0.816	0.21
136_N	176_R	0.815	0.21
148_T	179_I	0.814	0.20
99_E	261_S	0.811	0.20
98_V	119_V	0.803	0.20
37_D	44_N	0.799	0.20
68_L	149_L	0.796	0.20
40_M	43_N	0.794	0.20
35_Y	243_N	0.792	0.20
48_A	232_G	0.791	0.20
174_E	178_Q	0.784	0.20
275_Q	285_G	0.783	0.20
103_E	126_R	0.778	0.19
140_S	178_Q	0.778	0.19
55_T	236_V	0.777	0.19
65_T	208_K	0.775	0.19
265_S	271_L	0.771	0.19
35_Y	315_M	0.769	0.19
49_V	155_Q	0.766	0.19
82_G	99_E	0.766	0.19
258_R	265_S	0.766	0.19
48_A	81_A	0.764	0.19
205_S	294_G	0.761	0.19
56_L	154_E	0.759	0.19
90_L	164_V	0.759	0.19
83_A	319_L	0.758	0.19
178_Q	342_Y	0.756	0.19
48_A	120_S	0.756	0.19
151_A	173_E	0.756	0.19
184_A	187_E	0.755	0.19
205_S	229_A	0.753	0.19
158_N	232_G	0.749	0.18
240_M	306_A	0.748	0.18
37_D	236_V	0.739	0.18
42_D	46_P	0.738	0.18
175_S	179_I	0.738	0.18
65_T	209_K	0.734	0.18
36_V	131_V	0.734	0.18
296_E	300_S	0.732	0.18
159_M	242_E	0.732	0.18
98_V	331_G	0.727	0.18
133_L	164_V	0.724	0.18
86_A	259_V	0.723	0.18
81_A	304_R	0.721	0.18
70_I	108_C	0.720	0.18
143_N	173_E	0.713	0.17
297_T	301_D	0.713	0.17
191_E	281_M	0.712	0.17
80_S	259_V	0.711	0.17
51_R	162_V	0.710	0.17
304_R	334_L	0.708	0.17
145_Y	216_V	0.705	0.17
310_K	314_G	0.703	0.17
40_M	197_V	0.701	0.17
154_E	183_S	0.700	0.17
164_V	303_V	0.700	0.17
52_N	157_F	0.699	0.17
37_D	45_R	0.697	0.17
133_L	185_A	0.695	0.17
113_Y	158_N	0.694	0.17
142_P	186_F	0.689	0.17
153_V	185_A	0.688	0.17
43_N	118_S	0.687	0.17
34_D	164_V	0.687	0.17
146_D	330_D	0.687	0.17
106_C	137_E	0.684	0.17
259_V	262_K	0.684	0.17
73_V	111_S	0.683	0.17
91_Y	96_N	0.680	0.17
259_V	264_T	0.677	0.16
300_S	341_V	0.671	0.16
57_Y	118_S	0.671	0.16
87_A	283_R	0.670	0.16
145_Y	217_S	0.669	0.16
48_A	77_V	0.668	0.16
81_A	209_K	0.663	0.16
128_P	165_G	0.663	0.16
108_C	216_V	0.659	0.16
96_N	99_E	0.654	0.16
209_K	215_H	0.653	0.16
54_Q	58_N	0.651	0.16
40_M	157_F	0.646	0.16
285_G	315_M	0.645	0.16
204_N	322_K	0.645	0.16
133_L	208_K	0.644	0.16
71_L	235_I	0.643	0.16
300_S	344_D	0.641	0.16
336_N	340_D	0.639	0.15
72_P	100_L	0.638	0.15
210_D	258_R	0.636	0.15
99_E	163_A	0.634	0.15
55_T	59_T	0.634	0.15
102_I	217_S	0.633	0.15
243_N	248_K	0.633	0.15
105_G	344_D	0.629	0.15
146_D	227_L	0.626	0.15
154_E	162_V	0.626	0.15
290_G	321_R	0.625	0.15
290_G	316_G	0.625	0.15
316_G	321_R	0.625	0.15
290_G	320_G	0.625	0.15
316_G	320_G	0.625	0.15
115_V	136_N	0.624	0.15
87_A	332_V	0.624	0.15
291_G	321_R	0.623	0.15
291_G	316_G	0.623	0.15
291_G	320_G	0.623	0.15
117_A	228_A	0.621	0.15
50_L	121_R	0.620	0.15
134_N	199_W	0.618	0.15
117_A	159_M	0.616	0.15
122_R	126_R	0.614	0.15
281_M	344_D	0.613	0.15
55_T	131_V	0.612	0.15
35_Y	283_R	0.612	0.15
48_A	200_A	0.609	0.15
177_R	273_R	0.608	0.15
91_Y	278_N	0.608	0.15
218_A	265_S	0.605	0.15
72_P	124_A	0.603	0.15
131_V	229_A	0.603	0.15
39_V	47_P	0.603	0.15
79_H	132_K	0.602	0.15
78_E	132_K	0.600	0.15
69_S	339_Q	0.599	0.14
42_D	216_V	0.596	0.14
127_I	341_V	0.596	0.14
116_L	162_V	0.596	0.14
38_R	283_R	0.596	0.14
242_E	292_A	0.595	0.14
77_V	158_N	0.595	0.14
178_Q	181_E	0.592	0.14
84_S	168_I	0.592	0.14
134_N	165_G	0.591	0.14
38_R	115_V	0.591	0.14
180_E	183_S	0.590	0.14
198_L	278_N	0.590	0.14
38_R	301_D	0.588	0.14
55_T	209_K	0.588	0.14
46_P	131_V	0.585	0.14
46_P	194_M	0.584	0.14
43_N	95_K	0.584	0.14
232_G	328_M	0.582	0.14
36_V	39_V	0.581	0.14
296_E	326_K	0.577	0.14
155_Q	297_T	0.577	0.14
115_V	119_V	0.574	0.14
158_N	326_K	0.574	0.14
261_S	264_T	0.572	0.14
147_Q	314_G	0.572	0.14
120_S	312_A	0.572	0.14
99_E	345_S	0.571	0.14
54_Q	326_K	0.569	0.14
87_A	269_I	0.568	0.14
180_E	228_A	0.568	0.14
36_V	157_F	0.566	0.14
35_Y	249_A	0.566	0.14
90_L	99_E	0.565	0.14
56_L	59_T	0.563	0.14
55_T	163_A	0.562	0.14
110_A	165_G	0.562	0.14
43_N	50_L	0.561	0.14
265_S	270_D	0.561	0.14
257_D	264_T	0.560	0.14
111_S	249_A	0.558	0.14
82_G	259_V	0.557	0.13
147_Q	166_A	0.557	0.13
37_D	56_L	0.556	0.13
154_E	192_L	0.555	0.13
276_L	287_I	0.554	0.13
48_A	113_Y	0.554	0.13
248_K	262_K	0.554	0.13
268_P	304_R	0.553	0.13
144_T	205_S	0.552	0.13
258_R	344_D	0.550	0.13
294_G	327_S	0.549	0.13
68_L	345_S	0.549	0.13
305_T	314_G	0.548	0.13
179_I	231_I	0.547	0.13
40_M	265_S	0.545	0.13
34_D	301_D	0.544	0.13
79_H	134_N	0.542	0.13
83_A	168_I	0.541	0.13
175_S	262_K	0.541	0.13
154_E	179_I	0.540	0.13
149_L	184_A	0.539	0.13
80_S	220_L	0.537	0.13
271_L	314_G	0.537	0.13
36_V	338_V	0.536	0.13
38_R	41_I	0.536	0.13
36_V	279_C	0.535	0.13
101_A	199_W	0.534	0.13
39_V	131_V	0.534	0.13
200_A	232_G	0.534	0.13
197_V	279_C	0.533	0.13
87_A	249_A	0.533	0.13
59_T	301_D	0.533	0.13
45_R	186_F	0.532	0.13
44_N	190_H	0.532	0.13
299_L	330_D	0.531	0.13
187_E	257_D	0.530	0.13
174_E	329_A	0.529	0.13
61_R	86_A	0.528	0.13
323_A	338_V	0.527	0.13
77_V	131_V	0.526	0.13
165_G	199_W	0.526	0.13
47_P	247_Y	0.526	0.13
300_S	329_A	0.526	0.13
83_A	202_L	0.526	0.13
82_G	133_L	0.525	0.13
163_A	272_V	0.524	0.13
319_L	323_A	0.523	0.13
239_K	289_S	0.521	0.13
300_S	334_L	0.521	0.13
163_A	228_A	0.520	0.13
76_G	80_S	0.518	0.13
218_A	310_K	0.518	0.13
203_R	318_I	0.515	0.13
268_P	273_R	0.515	0.13
242_E	344_D	0.514	0.13
78_E	134_N	0.514	0.13
118_S	284_A	0.514	0.13
306_A	317_L	0.513	0.13
99_E	164_V	0.512	0.13
56_L	163_A	0.512	0.13
54_Q	164_V	0.511	0.12
137_E	179_I	0.511	0.12
232_G	261_S	0.510	0.12
184_A	296_E	0.510	0.12
52_N	200_A	0.509	0.12
44_N	115_V	0.509	0.12
192_L	196_T	0.506	0.12
208_K	271_L	0.506	0.12
77_V	150_Y	0.505	0.12
181_E	294_G	0.505	0.12
165_G	282_G	0.505	0.12
333_K	336_N	0.505	0.12
100_L	289_S	0.505	0.12
101_A	128_P	0.504	0.12
137_E	175_S	0.504	0.12
101_A	134_N	0.503	0.12
187_E	211_G	0.503	0.12
36_V	40_M	0.502	0.12
68_L	210_D	0.502	0.12
57_Y	108_C	0.501	0.12
38_R	42_D	0.500	0.12

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
3iv3A	2	0.8286	100	0.613	Contact Map
3fokA	3	0.7543	100	0.617	Contact Map
4mozA	5	0.8257	100	0.621	Contact Map
1to3A	2	0.7543	100	0.701	Contact Map
3glcA	6	0.76	100	0.774	Contact Map
1w8sA	4	0.7171	100	0.779	Contact Map
2qjgA	6	0.7514	100	0.81	Contact Map
3oa3A	2	0.68	99.9	0.835	Contact Map
3r12A	2	0.7086	99.8	0.863	Contact Map
3ndoA	2	0.6257	99.8	0.867	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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