ILVE - ECOLI - GREMLIN Contacts

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ILVE - Branched-chain-amino-acid aminotransferase

UniProt:	P0AB80	Sequences: MTTKKADYIWFNGEMVRWEDAKVHVMSHALHYGTSVFEGIRCYDSHKGPVVFRHREHMQRLHDSAKIYRFPVSQSIDELMEACRDVIRKNNLTSAYIRPLIFVGDVGMGVNPPAGYSTDVIIAAFPWGAYLGAEALEQGIDAMVSSWNRAAPNTIPTAAKAGGNYLSSLLVGSEARRHGYQEGIALDVNGYISEGAGENLFEVKDGVLFTPPFTSSALPGITRDAIIKLAKELGIEVREQVLSRESLYLADEVFMSGTAAEITPVRSVDGIQVGEGRCGPVTKRIQQAFFGLFTGETEDKWGWLDQVNQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10497
Length:	309 (272)
Sequences:	8632 (5539)
Seq/√Len:	335.9

ECOLI - ILVE PABC
BACSU - ILVE1 ILVE2 PABC DAAA
HALSA - Q9HNF8 Q9HS64

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
207_V	238_R	4.452	1.00
141_D	267_S	4.308	1.00
207_V	236_E	3.185	1.00
59_Q	76_I	3.171	1.00
240_Q	246_S	3.135	1.00
208_L	230_A	3.094	1.00
62_H	76_I	2.978	1.00
15_M	89_K	2.620	1.00
219_P	224_D	2.585	1.00
209_F	240_Q	2.441	1.00
287_Q	291_G	2.400	1.00
191_Y	241_V	2.372	1.00
75_S	78_E	2.296	1.00
85_D	89_K	2.275	1.00
233_L	288_A	2.214	1.00
56_E	224_D	2.214	1.00
69_R	177_R	2.155	1.00
143_M	180_Y	2.113	1.00
227_I	237_V	2.096	1.00
81_E	85_D	2.035	1.00
253_V	265_V	1.999	1.00
36_V	64_S	1.976	1.00
85_D	88_R	1.950	1.00
144_V	269_D	1.922	1.00
204_K	251_D	1.911	1.00
233_L	284_R	1.900	1.00
143_M	178_H	1.879	1.00
61_L	101_I	1.838	1.00
34_T	103_V	1.831	1.00
199_N	220_G	1.810	1.00
55_R	80_M	1.808	1.00
195_G	198_E	1.752	1.00
224_D	228_K	1.738	1.00
43_Y	261_E	1.713	1.00
142_A	265_V	1.713	1.00
267_S	270_G	1.710	1.00
66_K	72_V	1.706	1.00
144_V	244_R	1.697	1.00
53_R	225_A	1.697	1.00
248_Y	271_I	1.686	1.00
146_S	174_E	1.683	1.00
174_E	178_H	1.676	1.00
283_K	287_Q	1.669	1.00
65_A	101_I	1.642	1.00
203_V	281_V	1.638	1.00
202_E	242_L	1.636	1.00
18_W	24_H	1.621	1.00
284_R	288_A	1.617	1.00
142_A	184_I	1.577	1.00
70_F	101_I	1.570	1.00
142_A	195_G	1.560	1.00
226_I	256_S	1.551	1.00
253_V	268_V	1.550	1.00
17_R	20_D	1.548	1.00
200_L	253_V	1.544	1.00
36_V	65_A	1.527	1.00
140_I	181_Q	1.516	1.00
267_S	272_Q	1.515	1.00
59_Q	63_D	1.495	1.00
195_G	255_M	1.484	1.00
288_A	291_G	1.457	1.00
54_H	80_M	1.452	1.00
80_M	84_R	1.437	1.00
212_P	241_V	1.431	1.00
54_H	58_M	1.428	1.00
191_Y	243_S	1.421	1.00
201_F	256_S	1.416	1.00
208_L	235_I	1.410	1.00
204_K	249_L	1.405	1.00
55_R	59_Q	1.402	1.00
62_H	72_V	1.398	1.00
223_R	239_E	1.395	1.00
187_D	191_Y	1.394	1.00
141_D	266_R	1.388	1.00
228_K	232_E	1.380	1.00
202_E	250_A	1.370	1.00
92_L	95_A	1.369	1.00
42_C	87_I	1.361	1.00
215_S	241_V	1.353	1.00
63_D	66_K	1.352	1.00
40_I	51_V	1.341	1.00
141_D	181_Q	1.327	1.00
201_F	254_F	1.325	1.00
202_E	209_F	1.313	1.00
29_A	102_F	1.299	1.00
81_E	84_R	1.295	1.00
63_D	219_P	1.293	1.00
184_I	200_L	1.290	1.00
56_E	228_K	1.290	1.00
51_V	54_H	1.277	1.00
230_A	235_I	1.267	1.00
29_A	35_S	1.263	1.00
284_R	287_Q	1.262	1.00
210_T	223_R	1.260	1.00
173_S	177_R	1.258	1.00
53_R	56_E	1.248	1.00
56_E	59_Q	1.243	1.00
203_V	208_L	1.231	1.00
252_E	279_G	1.217	1.00
202_E	253_V	1.216	1.00
133_A	138_Q	1.210	1.00
276_G	279_G	1.208	1.00
27_S	102_F	1.197	1.00
209_F	238_R	1.188	1.00
31_H	98_R	1.180	1.00
84_R	88_R	1.171	1.00
70_F	116_Y	1.168	1.00
257_G	260_A	1.166	1.00
78_E	81_E	1.159	1.00
86_V	122_I	1.154	1.00
235_I	281_V	1.151	1.00
82_A	122_I	1.139	1.00
51_V	83_C	1.132	1.00
10_W	82_A	1.127	1.00
42_C	95_A	1.122	1.00
10_W	15_M	1.119	1.00
64_S	159_A	1.112	1.00
83_C	97_I	1.110	1.00
35_S	163_G	1.110	1.00
230_A	285_I	1.108	1.00
77_D	81_E	1.103	1.00
243_S	246_S	1.098	1.00
82_A	120_V	1.096	1.00
171_V	185_A	1.086	1.00
242_L	246_S	1.083	1.00
36_V	61_L	1.083	1.00
151_A	188_V	1.071	1.00
142_A	255_M	1.067	1.00
15_M	86_V	1.066	1.00
83_C	122_I	1.042	1.00
252_E	282_T	1.039	1.00
30_L	102_F	1.031	1.00
255_M	265_V	1.029	1.00
223_R	227_I	1.019	1.00
67_I	159_A	1.018	1.00
101_I	120_V	1.015	1.00
86_V	124_A	1.009	1.00
63_D	158_A	1.008	1.00
212_P	240_Q	1.004	1.00
182_E	196_A	1.000	1.00
278_C	283_K	1.000	1.00
100_L	121_I	0.993	1.00
87_I	95_A	0.991	1.00
36_V	101_I	0.989	1.00
139_G	266_R	0.987	1.00
209_F	242_L	0.986	1.00
58_M	80_M	0.985	1.00
212_P	239_E	0.985	1.00
190_G	245_E	0.971	1.00
204_K	246_S	0.971	1.00
201_F	223_R	0.969	1.00
55_R	76_I	0.968	1.00
172_G	176_R	0.967	1.00
201_F	227_I	0.967	1.00
76_I	80_M	0.966	1.00
231_K	239_E	0.965	1.00
37_F	165_Y	0.964	1.00
62_H	66_K	0.962	1.00
67_I	158_A	0.955	1.00
184_I	247_L	0.955	1.00
279_G	282_T	0.954	1.00
145_S	183_G	0.951	1.00
230_A	237_V	0.950	1.00
211_P	242_L	0.947	1.00
174_E	177_R	0.942	1.00
187_D	216_S	0.938	1.00
44_D	93_T	0.933	1.00
59_Q	62_H	0.933	1.00
213_F	219_P	0.927	1.00
220_G	256_S	0.927	1.00
213_F	223_R	0.927	1.00
9_I	18_W	0.926	1.00
286_Q	290_F	0.925	1.00
25_V	121_I	0.925	1.00
11_F	21_A	0.924	1.00
192_I	200_L	0.917	1.00
206_G	251_D	0.911	1.00
72_V	101_I	0.906	1.00
27_S	104_G	0.892	1.00
23_V	30_L	0.879	1.00
58_M	76_I	0.874	1.00
58_M	83_C	0.874	1.00
228_K	231_K	0.869	1.00
283_K	286_Q	0.869	1.00
206_G	236_E	0.866	1.00
69_R	173_S	0.865	1.00
231_K	236_E	0.864	1.00
31_H	123_A	0.863	1.00
27_S	106_V	0.857	1.00
95_A	124_A	0.853	1.00
199_N	256_S	0.846	1.00
63_D	67_I	0.846	1.00
203_V	252_E	0.844	1.00
14_E	22_K	0.844	1.00
58_M	62_H	0.840	1.00
171_V	196_A	0.838	1.00
186_L	244_R	0.838	1.00
280_P	284_R	0.836	1.00
65_A	72_V	0.836	1.00
68_Y	166_L	0.829	1.00
62_H	79_L	0.826	1.00
56_E	225_A	0.825	1.00
15_M	82_A	0.824	1.00
232_E	288_A	0.816	1.00
11_F	121_I	0.815	1.00
281_V	284_R	0.811	1.00
250_A	253_V	0.808	1.00
204_K	209_F	0.806	1.00
31_H	100_L	0.804	1.00
41_R	94_S	0.803	1.00
20_D	24_H	0.802	1.00
279_G	283_K	0.799	1.00
140_I	263_T	0.797	1.00
54_H	83_C	0.791	1.00
86_V	90_N	0.791	1.00
77_D	80_M	0.790	1.00
42_C	97_I	0.789	1.00
230_A	233_L	0.788	1.00
56_E	221_I	0.786	1.00
209_F	246_S	0.786	1.00
65_A	70_F	0.780	1.00
111_N	176_R	0.778	1.00
40_I	83_C	0.777	1.00
22_K	25_V	0.774	1.00
229_L	233_L	0.773	1.00
192_I	202_E	0.766	1.00
227_I	231_K	0.766	1.00
42_C	51_V	0.761	1.00
142_A	182_E	0.759	1.00
280_P	283_K	0.758	1.00
189_N	241_V	0.758	1.00
43_Y	52_F	0.755	1.00
203_V	254_F	0.753	1.00
58_M	79_L	0.752	1.00
52_F	225_A	0.751	1.00
205_D	251_D	0.750	1.00
41_R	261_E	0.749	1.00
171_V	183_G	0.747	0.99
245_E	249_L	0.747	0.99
113_P	116_Y	0.746	0.99
227_I	239_E	0.737	0.99
182_E	195_G	0.737	0.99
200_L	211_P	0.735	0.99
183_G	196_A	0.734	0.99
41_R	258_T	0.730	0.99
34_T	169_L	0.727	0.99
96_Y	259_A	0.727	0.99
144_V	186_L	0.725	0.99
275_E	278_C	0.724	0.99
111_N	114_A	0.723	0.99
78_E	82_A	0.721	0.99
145_S	174_E	0.720	0.99
39_G	259_A	0.714	0.99
140_I	255_M	0.709	0.99
247_L	268_V	0.705	0.99
225_A	228_K	0.705	0.99
112_P	116_Y	0.704	0.99
21_A	121_I	0.702	0.99
33_G	164_N	0.702	0.99
28_H	34_T	0.699	0.99
18_W	26_M	0.699	0.99
194_E	218_L	0.695	0.99
68_Y	161_A	0.694	0.99
96_Y	125_F	0.691	0.99
30_L	121_I	0.689	0.99
245_E	248_Y	0.688	0.99
39_G	257_G	0.685	0.99
138_Q	181_Q	0.682	0.99
40_I	99_P	0.682	0.99
82_A	85_D	0.678	0.99
201_F	210_T	0.678	0.99
198_E	255_M	0.676	0.99
39_G	96_Y	0.676	0.99
226_I	285_I	0.676	0.99
139_G	263_T	0.675	0.99
248_Y	269_D	0.675	0.99
192_I	242_L	0.674	0.99
43_Y	94_S	0.673	0.99
266_R	278_C	0.671	0.99
28_H	103_V	0.671	0.99
147_W	174_E	0.669	0.99
110_V	168_S	0.668	0.99
23_V	27_S	0.667	0.99
148_N	153_N	0.662	0.99
229_L	288_A	0.659	0.99
90_N	124_A	0.659	0.99
100_L	163_G	0.656	0.99
232_E	292_L	0.656	0.99
59_Q	224_D	0.655	0.99
210_T	239_E	0.653	0.99
21_A	25_V	0.653	0.99
30_L	100_L	0.653	0.99
274_G	278_C	0.652	0.99
145_S	171_V	0.651	0.99
182_E	198_E	0.651	0.99
172_G	182_E	0.649	0.99
204_K	250_A	0.648	0.99
161_A	166_L	0.647	0.99
102_F	121_I	0.646	0.99
175_A	179_G	0.645	0.99
73_S	78_E	0.644	0.99
247_L	253_V	0.641	0.98
269_D	272_Q	0.641	0.98
186_L	192_I	0.639	0.98
15_M	85_D	0.638	0.98
38_E	64_S	0.635	0.98
260_A	263_T	0.634	0.98
173_S	176_R	0.629	0.98
11_F	16_V	0.628	0.98
212_P	215_S	0.627	0.98
151_A	154_T	0.626	0.98
143_M	269_D	0.625	0.98
172_G	197_G	0.625	0.98
9_I	21_A	0.624	0.98
178_H	270_G	0.622	0.98
36_V	68_Y	0.621	0.98
141_D	180_Y	0.621	0.98
112_P	173_S	0.621	0.98
208_L	254_F	0.619	0.98
83_C	99_P	0.616	0.98
190_G	244_R	0.614	0.98
66_K	71_P	0.613	0.98
51_V	84_R	0.612	0.98
202_E	247_L	0.612	0.98
261_E	290_F	0.608	0.98
184_I	253_V	0.607	0.98
160_K	218_L	0.607	0.98
262_I	285_I	0.599	0.98
244_R	248_Y	0.597	0.98
160_K	194_E	0.592	0.97
165_Y	218_L	0.591	0.97
86_V	89_K	0.589	0.97
62_H	75_S	0.588	0.97
61_L	99_P	0.588	0.97
288_A	292_L	0.586	0.97
92_L	124_A	0.586	0.97
150_A	154_T	0.586	0.97
269_D	273_V	0.586	0.97
214_T	241_V	0.584	0.97
143_M	174_E	0.579	0.97
16_V	19_E	0.576	0.97
246_S	249_L	0.576	0.97
261_E	289_F	0.574	0.97
225_A	229_L	0.573	0.97
51_V	97_I	0.572	0.97
225_A	289_F	0.572	0.97
44_D	94_S	0.571	0.97
24_H	105_D	0.569	0.97
148_N	186_L	0.569	0.97
149_R	165_Y	0.564	0.97
54_H	84_R	0.562	0.96
165_Y	168_S	0.561	0.96
53_R	221_I	0.559	0.96
32_Y	164_N	0.557	0.96
26_M	105_D	0.555	0.96
96_Y	108_M	0.554	0.96
138_Q	277_R	0.554	0.96
201_F	208_L	0.554	0.96
34_T	70_F	0.552	0.96
158_A	215_S	0.551	0.96
229_L	232_E	0.551	0.96
98_R	163_G	0.551	0.96
38_E	61_L	0.549	0.96
272_Q	275_E	0.548	0.96
264_P	279_G	0.545	0.96
208_L	281_V	0.544	0.96
274_G	279_G	0.542	0.96
206_G	235_I	0.542	0.96
150_A	157_T	0.541	0.96
155_I	163_G	0.540	0.96
52_F	258_T	0.539	0.96
111_N	115_G	0.539	0.96
16_V	21_A	0.538	0.96
40_I	54_H	0.537	0.95
200_L	247_L	0.536	0.95
150_A	167_S	0.535	0.95
18_W	90_N	0.535	0.95
51_V	87_I	0.534	0.95
36_V	161_A	0.533	0.95
213_F	239_E	0.532	0.95
231_K	237_V	0.531	0.95
199_N	219_P	0.530	0.95
282_T	285_I	0.529	0.95
203_V	206_G	0.526	0.95
225_A	292_L	0.524	0.95
102_F	163_G	0.524	0.95
175_A	183_G	0.523	0.95
36_V	159_A	0.523	0.95
40_I	58_M	0.523	0.95
26_M	31_H	0.523	0.95
222_T	289_F	0.521	0.95
221_I	224_D	0.521	0.95
207_V	240_Q	0.520	0.95
35_S	100_L	0.520	0.95
226_I	262_I	0.513	0.94
209_F	251_D	0.513	0.94
13_G	82_A	0.513	0.94
273_V	276_G	0.512	0.94
98_R	165_Y	0.509	0.94
28_H	108_M	0.508	0.94
144_V	268_V	0.507	0.94
97_I	124_A	0.506	0.94
254_F	282_T	0.506	0.94
171_V	174_E	0.504	0.94
222_T	258_T	0.503	0.94
83_C	86_V	0.502	0.94
117_S	121_I	0.501	0.93
35_S	161_A	0.500	0.93

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
1iyeA	5	0.9838	100	0.126	Contact Map
3u0gA	5	0.9709	100	0.141	Contact Map
2eiyA	5	0.9838	100	0.143	Contact Map
4chiA	2	0.9612	100	0.162	Contact Map
3dtgA	2	0.9773	100	0.166	Contact Map
3uzoA	2	0.9676	100	0.18	Contact Map
2coiA	2	0.9547	100	0.181	Contact Map
4dqnA	2	0.9709	100	0.185	Contact Map
4tm5A	2	0.9159	100	0.193	Contact Map
4cmfA	4	0.9676	100	0.194	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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