LEUO - ECOLI - GREMLIN Contacts

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LEUO - HTH-type transcriptional regulator LeuO

UniProt:	P10151	Sequences: MPEVQTDHPETAELSKPQLRMVDLNLLTVFDAVMQEQNITRAAHVLGMSQPAVSNAVARLKVMFNDELFVRYGRGIQPTARAFQLFGSVRQALQLVQNELPGSGFEPASSERVFHLCVCSPLDSILTSQIYNHIEQIAPNIHVMFKSSLNQNTEHQLRYQETEFVISYEDFHRPEFTSVPLFKDEMVLVASKNHPTIKGPLLKHDVYNEQHAAVSLDRFASFSQPWYDTVDKQASIAYQGMAMMSVLSVVSQTHLVAIAPRWLAEEFAESLELQVLPLPLKQNSRTCYLSWHEAAGRDKGHQWMEEQLVSICKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10531
Length:	314 (287)
Sequences:	79253 (57508)
Seq/√Len:	3394.6

ECOLI - LEUO YBEF OXYR YDCI PGRR YBDO LYSR NHAR YBHD ILVY TDCA YEIE YCAN AAER NAC CYNR CYSB YIDZ TTDR ABGR YAFC YHJC DSDC YDHB YFER YEEY YNFL DMLR CBL YFIE YAHB ALLS YIAU XAPR YHAJ GCVA YNEJ HCAR ICIA METR YGFI YJIE PERR LRHA HDFR
BACSU - CYSL YWBI YCGK GLTC YVBU ALSR YYBE GLTR YTLI BSDA YWQM CITR YUST YOFA YKUM CZCR YXJO YRAN YOAU

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
91_Q	95_L	3.645	1.00
36_E	45_V	3.410	1.00
179_V	309_V	2.657	1.00
117_C	162_T	2.487	1.00
88_S	102_G	2.485	1.00
32_A	45_V	2.392	1.00
250_V	257_A	2.230	1.00
183_K	286_T	2.225	1.00
180_P	183_K	2.225	1.00
194_H	209_E	2.225	1.00
113_V	144_M	2.221	1.00
180_P	286_T	2.218	1.00
185_E	261_R	2.125	1.00
66_D	81_R	2.114	1.00
29_V	56_A	2.091	1.00
113_V	142_H	2.084	1.00
31_D	90_R	2.050	1.00
41_R	44_H	2.037	1.00
247_L	267_F	2.024	1.00
183_K	284_S	2.019	1.00
88_S	95_L	2.012	1.00
202_L	205_D	2.009	1.00
251_S	272_E	1.998	1.00
31_D	35_Q	1.991	1.00
133_H	307_Q	1.985	1.00
187_V	261_R	1.980	1.00
115_H	144_M	1.964	1.00
32_A	36_E	1.962	1.00
35_Q	90_R	1.958	1.00
31_D	86_F	1.928	1.00
32_A	35_Q	1.927	1.00
34_M	78_P	1.906	1.00
29_V	53_V	1.898	1.00
212_A	255_L	1.879	1.00
190_A	276_L	1.867	1.00
92_A	96_V	1.866	1.00
86_F	90_R	1.829	1.00
187_V	275_V	1.767	1.00
251_S	267_F	1.735	1.00
70_V	77_Q	1.718	1.00
178_S	288_Y	1.712	1.00
210_Q	237_A	1.708	1.00
85_L	99_E	1.690	1.00
39_I	57_V	1.688	1.00
84_Q	102_G	1.686	1.00
34_M	86_F	1.669	1.00
156_Q	161_E	1.663	1.00
153_T	165_V	1.640	1.00
36_E	41_R	1.605	1.00
177_T	293_E	1.573	1.00
31_D	89_V	1.560	1.00
35_Q	45_V	1.554	1.00
26_L	56_A	1.531	1.00
88_S	91_Q	1.526	1.00
134_I	304_M	1.525	1.00
26_L	63_M	1.519	1.00
155_H	159_Y	1.519	1.00
179_V	291_W	1.517	1.00
30_F	86_F	1.493	1.00
38_N	41_R	1.489	1.00
29_V	48_M	1.484	1.00
109_S	140_N	1.465	1.00
220_A	224_Q	1.465	1.00
26_L	59_R	1.463	1.00
49_S	52_A	1.450	1.00
134_I	141_I	1.450	1.00
40_T	50_Q	1.434	1.00
67_E	70_V	1.432	1.00
23_D	26_L	1.431	1.00
124_S	244_M	1.426	1.00
167_S	290_S	1.417	1.00
32_A	46_L	1.415	1.00
88_S	98_N	1.408	1.00
177_T	291_W	1.396	1.00
80_A	83_F	1.388	1.00
169_E	288_Y	1.382	1.00
291_W	305_E	1.380	1.00
305_E	309_V	1.372	1.00
31_D	93_L	1.366	1.00
297_R	301_H	1.356	1.00
92_A	99_E	1.350	1.00
95_L	98_N	1.346	1.00
72_Y	77_Q	1.346	1.00
115_H	146_K	1.335	1.00
156_Q	162_T	1.329	1.00
111_E	140_N	1.326	1.00
184_D	262_W	1.314	1.00
157_L	165_V	1.311	1.00
158_R	175_E	1.309	1.00
137_I	307_Q	1.305	1.00
303_W	306_E	1.304	1.00
289_L	305_E	1.301	1.00
192_K	272_E	1.297	1.00
24_L	96_V	1.290	1.00
85_L	100_L	1.284	1.00
246_V	257_A	1.283	1.00
133_H	137_I	1.274	1.00
87_G	91_Q	1.270	1.00
164_F	289_L	1.267	1.00
135_E	237_A	1.266	1.00
164_F	301_H	1.261	1.00
88_S	99_E	1.250	1.00
190_A	256_V	1.248	1.00
209_E	256_V	1.235	1.00
248_S	251_S	1.233	1.00
267_F	272_E	1.224	1.00
180_P	288_Y	1.220	1.00
261_R	275_V	1.214	1.00
192_K	274_Q	1.212	1.00
135_E	210_Q	1.202	1.00
84_Q	87_G	1.198	1.00
48_M	52_A	1.197	1.00
221_S	225_P	1.187	1.00
30_F	69_F	1.186	1.00
132_N	136_Q	1.180	1.00
227_Y	232_K	1.167	1.00
55_N	59_R	1.165	1.00
261_R	265_E	1.158	1.00
132_N	252_Q	1.154	1.00
148_S	152_N	1.150	1.00
178_S	290_S	1.143	1.00
195_P	209_E	1.141	1.00
30_F	34_M	1.140	1.00
83_F	87_G	1.140	1.00
199_G	274_Q	1.132	1.00
55_N	58_A	1.129	1.00
58_A	62_V	1.128	1.00
84_Q	88_S	1.108	1.00
200_P	279_P	1.102	1.00
265_E	269_E	1.099	1.00
144_M	239_Q	1.096	1.00
63_M	100_L	1.095	1.00
91_Q	98_N	1.091	1.00
210_Q	235_S	1.087	1.00
138_A	303_W	1.080	1.00
129_Q	252_Q	1.075	1.00
275_V	278_L	1.075	1.00
123_D	147_S	1.070	1.00
39_I	76_I	1.070	1.00
212_A	246_V	1.067	1.00
148_S	156_Q	1.067	1.00
27_L	89_V	1.064	1.00
32_A	42_A	1.062	1.00
201_L	205_D	1.056	1.00
134_I	307_Q	1.052	1.00
179_V	305_E	1.051	1.00
30_F	68_L	1.050	1.00
189_V	275_V	1.050	1.00
133_H	136_Q	1.050	1.00
248_S	252_Q	1.048	1.00
56_A	59_R	1.048	1.00
292_H	295_A	1.044	1.00
114_F	304_M	1.042	1.00
247_L	251_S	1.040	1.00
306_E	309_V	1.039	1.00
54_S	58_A	1.037	1.00
92_A	95_L	1.033	1.00
302_Q	306_E	1.028	1.00
158_R	173_R	1.027	1.00
25_N	28_T	1.026	1.00
33_V	42_A	1.021	1.00
221_S	224_Q	1.013	1.00
240_G	246_V	1.008	1.00
191_S	253_T	1.008	1.00
100_L	104_G	1.006	1.00
266_E	270_S	1.004	1.00
185_E	284_S	1.002	1.00
130_I	308_L	0.993	1.00
28_T	97_Q	0.988	1.00
146_K	156_Q	0.984	1.00
78_P	82_A	0.982	1.00
203_K	280_L	0.981	1.00
94_Q	98_N	0.972	1.00
34_M	69_F	0.962	1.00
85_L	89_V	0.958	1.00
48_M	53_V	0.956	1.00
134_I	138_A	0.954	1.00
189_V	264_A	0.954	1.00
188_L	256_V	0.953	1.00
148_S	153_T	0.951	1.00
97_Q	100_L	0.946	1.00
33_V	39_I	0.944	1.00
190_A	194_H	0.940	1.00
29_V	46_L	0.938	1.00
59_R	62_V	0.935	1.00
42_A	53_V	0.925	1.00
240_G	249_V	0.922	1.00
30_F	78_P	0.920	1.00
22_V	63_M	0.917	1.00
213_A	236_I	0.912	1.00
307_Q	310_S	0.910	1.00
30_F	60_L	0.910	1.00
194_H	197_I	0.908	1.00
156_Q	159_Y	0.904	1.00
97_Q	101_P	0.900	1.00
41_R	45_V	0.899	1.00
137_I	310_S	0.897	1.00
84_Q	106_E	0.897	1.00
298_D	301_H	0.891	1.00
120_S	242_A	0.888	1.00
69_F	76_I	0.887	1.00
130_I	307_Q	0.883	1.00
91_Q	94_Q	0.883	1.00
66_D	103_S	0.866	1.00
37_Q	77_Q	0.863	1.00
211_H	234_A	0.859	1.00
162_T	165_V	0.854	1.00
169_E	286_T	0.854	1.00
25_N	56_A	0.851	1.00
40_T	44_H	0.850	1.00
34_M	82_A	0.849	1.00
267_F	270_S	0.845	1.00
87_G	90_R	0.841	1.00
72_Y	75_G	0.839	1.00
96_V	100_L	0.836	1.00
177_T	180_P	0.833	1.00
117_C	153_T	0.831	1.00
117_C	167_S	0.828	1.00
141_I	300_G	0.825	1.00
264_A	267_F	0.825	1.00
154_E	158_R	0.825	1.00
196_T	209_E	0.825	1.00
132_N	254_H	0.820	1.00
142_H	235_S	0.820	1.00
190_A	195_P	0.816	1.00
81_R	84_Q	0.811	1.00
46_L	53_V	0.810	1.00
176_F	290_S	0.810	1.00
116_L	164_F	0.809	1.00
194_H	198_K	0.809	1.00
194_H	210_Q	0.808	1.00
81_R	106_E	0.805	1.00
195_P	199_G	0.802	1.00
81_R	103_S	0.800	1.00
226_W	230_V	0.797	1.00
146_K	162_T	0.797	1.00
112_R	300_G	0.796	1.00
96_V	99_E	0.795	1.00
30_F	85_L	0.794	1.00
202_L	279_P	0.794	1.00
189_V	257_A	0.792	1.00
117_C	165_V	0.790	1.00
98_N	102_G	0.789	1.00
210_Q	236_I	0.788	1.00
297_R	302_Q	0.783	1.00
35_Q	86_F	0.783	1.00
34_M	37_Q	0.782	1.00
24_L	93_L	0.781	1.00
33_V	69_F	0.780	1.00
204_H	207_Y	0.779	1.00
198_K	210_Q	0.778	1.00
50_Q	54_S	0.777	1.00
135_E	254_H	0.777	1.00
37_Q	83_F	0.776	1.00
37_Q	75_G	0.776	1.00
191_S	254_H	0.776	1.00
299_K	303_W	0.767	1.00
36_E	42_A	0.763	1.00
95_L	99_E	0.761	1.00
251_S	270_S	0.760	1.00
175_E	293_E	0.759	1.00
33_V	57_V	0.759	1.00
222_F	226_W	0.759	1.00
58_A	67_E	0.758	1.00
152_N	155_H	0.754	1.00
28_T	32_A	0.752	1.00
249_V	254_H	0.747	1.00
306_E	310_S	0.746	1.00
223_S	226_W	0.744	1.00
225_P	229_T	0.743	1.00
185_E	277_P	0.741	1.00
39_I	53_V	0.739	1.00
112_R	141_I	0.737	1.00
205_D	208_N	0.736	1.00
268_A	271_L	0.736	1.00
26_L	29_V	0.734	1.00
164_F	304_M	0.731	1.00
134_I	303_W	0.724	1.00
197_I	274_Q	0.724	1.00
189_V	268_A	0.722	1.00
89_V	92_A	0.719	1.00
110_S	138_A	0.718	1.00
189_V	259_A	0.718	1.00
191_S	194_H	0.717	1.00
99_E	103_S	0.717	1.00
90_R	94_Q	0.716	1.00
295_A	298_D	0.713	1.00
190_A	196_T	0.713	1.00
33_V	53_V	0.711	1.00
83_F	86_F	0.710	1.00
158_R	176_F	0.708	1.00
215_S	239_Q	0.707	1.00
104_G	107_P	0.704	1.00
137_I	303_W	0.703	1.00
118_V	123_D	0.700	1.00
242_A	245_S	0.700	1.00
193_N	197_I	0.697	1.00
70_V	79_T	0.697	1.00
268_A	275_V	0.697	1.00
223_S	227_Y	0.697	1.00
260_P	263_L	0.695	1.00
226_W	229_T	0.695	1.00
264_A	268_A	0.693	1.00
160_Q	292_H	0.691	1.00
78_P	83_F	0.686	1.00
202_L	280_L	0.683	1.00
222_F	225_P	0.681	1.00
190_A	274_Q	0.680	1.00
303_W	307_Q	0.678	1.00
115_H	162_T	0.676	1.00
80_A	84_Q	0.672	1.00
81_R	85_L	0.671	1.00
28_T	31_D	0.669	1.00
193_N	253_T	0.668	1.00
22_V	100_L	0.665	1.00
163_E	301_H	0.663	1.00
200_P	277_P	0.662	1.00
52_A	56_A	0.661	1.00
70_V	75_G	0.660	1.00
115_H	163_E	0.656	1.00
77_Q	83_F	0.656	1.00
142_H	239_Q	0.652	1.00
220_A	239_Q	0.651	1.00
88_S	92_A	0.650	1.00
124_S	248_S	0.649	1.00
214_V	246_V	0.648	1.00
85_L	103_S	0.647	1.00
98_N	101_P	0.640	1.00
211_H	256_V	0.636	1.00
219_F	223_S	0.632	1.00
185_E	281_K	0.631	1.00
61_K	71_R	0.629	1.00
238_Y	249_V	0.628	1.00
147_S	241_M	0.627	1.00
44_H	47_G	0.626	1.00
193_N	196_T	0.625	1.00
207_Y	232_K	0.623	1.00
25_N	59_R	0.623	1.00
94_Q	97_Q	0.618	1.00
225_P	228_D	0.615	1.00
133_H	310_S	0.614	1.00
188_L	258_I	0.611	1.00
152_N	156_Q	0.609	1.00
224_Q	228_D	0.609	1.00
266_E	269_E	0.608	1.00
61_K	66_D	0.608	1.00
118_V	127_T	0.606	1.00
129_Q	132_N	0.601	1.00
28_T	93_L	0.599	1.00
299_K	302_Q	0.597	1.00
188_L	206_V	0.597	1.00
33_V	38_N	0.596	1.00
89_V	93_L	0.594	1.00
164_F	305_E	0.591	1.00
215_S	241_M	0.591	1.00
57_V	61_K	0.590	1.00
168_Y	285_R	0.588	1.00
42_A	46_L	0.585	1.00
204_H	230_V	0.584	1.00
114_F	300_G	0.584	1.00
127_T	130_I	0.581	1.00
208_N	235_S	0.580	1.00
193_N	274_Q	0.579	1.00
111_E	142_H	0.576	1.00
192_K	271_L	0.573	1.00
101_P	105_F	0.571	1.00
219_F	222_F	0.571	1.00
30_F	82_A	0.571	1.00
84_Q	103_S	0.570	1.00
157_L	290_S	0.567	1.00
64_F	85_L	0.567	1.00
114_F	164_F	0.567	1.00
184_D	285_R	0.565	1.00
25_N	29_V	0.563	1.00
194_H	256_V	0.560	1.00
166_I	308_L	0.560	1.00
39_I	75_G	0.560	1.00
220_A	226_W	0.559	1.00
291_W	302_Q	0.555	1.00
66_D	70_V	0.554	1.00
147_S	242_A	0.553	1.00
182_F	287_C	0.553	1.00
304_M	308_L	0.552	1.00
93_L	97_Q	0.552	1.00
246_V	250_V	0.551	1.00
240_G	245_S	0.550	1.00
64_F	103_S	0.550	1.00
52_A	55_N	0.549	1.00
138_A	141_I	0.546	1.00
49_S	55_N	0.545	1.00
186_M	258_I	0.545	1.00
69_F	78_P	0.542	1.00
51_P	55_N	0.542	1.00
196_T	201_L	0.536	1.00
34_M	83_F	0.535	1.00
78_P	86_F	0.534	1.00
188_L	211_H	0.534	1.00
129_Q	133_H	0.533	1.00
157_L	176_F	0.531	1.00
64_F	67_E	0.530	1.00
221_S	226_W	0.529	1.00
181_L	289_L	0.527	1.00
117_C	146_K	0.525	1.00
249_V	255_L	0.524	1.00
169_E	178_S	0.522	1.00
105_F	110_S	0.522	1.00
221_S	227_Y	0.522	1.00
177_T	294_A	0.521	1.00
218_R	221_S	0.521	1.00
278_L	281_K	0.519	1.00
126_L	130_I	0.519	1.00
259_A	264_A	0.518	1.00
39_I	50_Q	0.518	1.00
112_R	140_N	0.518	1.00
153_T	160_Q	0.517	1.00
122_L	126_L	0.516	1.00
216_L	239_Q	0.515	1.00
224_Q	227_Y	0.514	1.00
124_S	242_A	0.512	1.00
131_Y	143_V	0.511	1.00
220_A	223_S	0.510	1.00
207_Y	233_Q	0.509	1.00
29_V	57_V	0.508	1.00
48_M	56_A	0.506	1.00
200_P	205_D	0.504	1.00
87_G	102_G	0.502	1.00
190_A	197_I	0.501	1.00
185_E	282_Q	0.501	1.00
37_Q	76_I	0.500	1.00
67_E	81_R	0.500	1.00

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
2esnA	3	0.949	100	0.129	Contact Map
3fzvA	4	0.9172	100	0.137	Contact Map
1uthA	2	0.707	100	0.139	Contact Map
3fxqA	3	0.9299	100	0.144	Contact Map
2h98A	2	0.6401	100	0.152	Contact Map
1ixcA	4	0.9236	100	0.156	Contact Map
2h9bA	2	0.6401	100	0.157	Contact Map
1al3A	1	0.6592	100	0.159	Contact Map
4x6gA	4	0.9459	100	0.159	Contact Map
3szpA	3	0.9204	100	0.164	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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