YCAN - ECOLI - GREMLIN Contacts

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YCAN - Uncharacterized HTH-type transcriptional regulator YcaN

UniProt:	P75836	Sequences: MRMNMSDFATFFAVARNQSFRAAGDELGLSSSAISHSIKTLEQRLKIRLFNRTTRSVSLTEAGSNLYERLRPAFDEIQIMLDEMNDFRLTPTGTLKINAARVAARIFLMSLLVGFTREYPDIKVELTTDDSLVDIVQQGFDAGVRLSCIVEKDMISVAIGPPVKLCVAATPEYFARYGKPRHPHDLLNHQCVVFRYPSGKPFHWQFAKELEIAVAGNIILDDVDAELEAVLMGAGIGYLLYEQIKEYLDTGRLECVLEDWSTERPGFQIYYPNRQYMSCGLRAFLDYVKTGQICQSQRHRPQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13698
Length:	302 (287)
Sequences:	79842 (58057)
Seq/√Len:	3427.0

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
72_P	76_E	3.570	1.00
17_N	26_E	3.383	1.00
157_V	289_K	2.693	1.00
98_N	140_F	2.601	1.00
69_R	83_E	2.410	1.00
230_V	237_G	2.293	1.00
13_A	26_E	2.223	1.00
173_Y	189_H	2.203	1.00
114_G	291_G	2.199	1.00
164_K	241_Y	2.186	1.00
158_A	161_P	2.175	1.00
161_P	266_G	2.168	1.00
94_T	125_E	2.125	1.00
22_A	25_D	2.106	1.00
94_T	123_K	2.085	1.00
16_R	71_R	2.080	1.00
158_A	266_G	2.070	1.00
182_H	185_D	2.025	1.00
47_I	62_A	2.024	1.00
10_T	37_S	2.013	1.00
12_F	67_Y	1.961	1.00
231_L	252_R	1.959	1.00
69_R	76_E	1.957	1.00
227_L	247_Y	1.955	1.00
114_G	287_Y	1.947	1.00
96_K	125_E	1.933	1.00
12_F	71_R	1.926	1.00
161_P	264_R	1.921	1.00
13_A	16_R	1.898	1.00
169_A	256_V	1.887	1.00
192_V	235_G	1.877	1.00
12_F	16_R	1.875	1.00
10_T	34_I	1.867	1.00
73_A	77_I	1.866	1.00
13_A	17_N	1.865	1.00
15_A	59_L	1.852	1.00
231_L	247_Y	1.834	1.00
166_C	241_Y	1.829	1.00
67_Y	71_R	1.802	1.00
20_F	38_I	1.797	1.00
51_N	58_S	1.732	1.00
66_L	80_M	1.700	1.00
190_Q	217_N	1.670	1.00
65_N	83_E	1.658	1.00
166_C	255_C	1.658	1.00
156_S	268_Q	1.655	1.00
178_G	185_D	1.639	1.00
115_F	284_F	1.609	1.00
134_D	139_G	1.604	1.00
16_R	26_E	1.579	1.00
15_A	67_Y	1.575	1.00
12_F	70_L	1.562	1.00
17_N	22_A	1.559	1.00
155_I	273_N	1.559	1.00
11_F	67_Y	1.552	1.00
200_K	204_W	1.551	1.00
10_T	29_L	1.540	1.00
133_V	137_Q	1.512	1.00
90_T	121_D	1.511	1.00
21_R	31_S	1.491	1.00
7_D	37_S	1.483	1.00
7_D	44_R	1.462	1.00
61_E	64_S	1.461	1.00
115_F	122_I	1.453	1.00
157_V	271_Y	1.446	1.00
48_R	51_N	1.439	1.00
19_S	22_A	1.431	1.00
7_D	40_T	1.425	1.00
69_R	72_P	1.423	1.00
30_S	33_A	1.421	1.00
13_A	27_L	1.409	1.00
12_F	74_F	1.408	1.00
285_L	289_K	1.405	1.00
277_M	281_L	1.402	1.00
155_I	271_Y	1.385	1.00
147_S	268_Q	1.383	1.00
145_R	270_Y	1.380	1.00
4_N	7_D	1.372	1.00
69_R	79_I	1.368	1.00
171_P	252_R	1.361	1.00
73_A	80_M	1.358	1.00
105_R	224_D	1.352	1.00
5_M	77_I	1.349	1.00
92_T	121_D	1.342	1.00
271_Y	285_L	1.331	1.00
136_V	153_D	1.325	1.00
114_G	118_E	1.325	1.00
269_I	285_L	1.314	1.00
283_A	286_D	1.311	1.00
96_K	127_T	1.299	1.00
163_V	242_E	1.297	1.00
134_D	140_F	1.292	1.00
135_I	143_G	1.290	1.00
142_A	281_L	1.285	1.00
116_T	217_N	1.278	1.00
53_T	58_S	1.272	1.00
169_A	236_I	1.270	1.00
44_R	81_L	1.267	1.00
66_L	81_L	1.262	1.00
189_H	236_I	1.258	1.00
142_A	269_I	1.251	1.00
76_E	79_I	1.250	1.00
226_E	237_G	1.245	1.00
247_Y	252_R	1.241	1.00
241_Y	245_K	1.231	1.00
118_E	287_Y	1.228	1.00
245_K	249_D	1.219	1.00
68_E	72_P	1.212	1.00
39_K	43_Q	1.205	1.00
228_E	231_L	1.200	1.00
64_S	68_E	1.197	1.00
241_Y	255_C	1.193	1.00
69_R	80_M	1.191	1.00
171_P	254_E	1.189	1.00
65_N	68_E	1.183	1.00
116_T	190_Q	1.177	1.00
113_V	117_R	1.174	1.00
179_K	254_E	1.174	1.00
11_F	50_F	1.172	1.00
114_G	117_R	1.164	1.00
158_A	268_Q	1.160	1.00
207_A	212_I	1.159	1.00
174_F	189_H	1.157	1.00
156_S	270_Y	1.147	1.00
29_L	33_A	1.140	1.00
11_F	15_A	1.123	1.00
192_V	226_E	1.118	1.00
36_H	39_K	1.111	1.00
95_L	284_F	1.110	1.00
36_H	40_T	1.106	1.00
11_F	49_L	1.104	1.00
190_Q	215_A	1.102	1.00
113_V	232_M	1.094	1.00
180_P	259_D	1.093	1.00
125_E	219_I	1.092	1.00
35_S	39_K	1.089	1.00
286_D	289_K	1.088	1.00
119_Y	283_A	1.077	1.00
72_P	79_I	1.074	1.00
9_A	78_Q	1.072	1.00
6_S	9_A	1.071	1.00
168_A	255_C	1.070	1.00
20_F	57_V	1.069	1.00
220_L	226_E	1.068	1.00
8_F	70_L	1.065	1.00
14_V	23_A	1.064	1.00
115_F	287_Y	1.063	1.00
104_A	128_T	1.063	1.00
73_A	76_E	1.060	1.00
13_A	23_A	1.052	1.00
282_R	286_D	1.047	1.00
287_Y	291_G	1.045	1.00
111_L	288_V	1.036	1.00
227_L	231_L	1.036	1.00
65_N	69_R	1.029	1.00
37_S	40_T	1.029	1.00
59_L	63_G	1.022	1.00
110_S	232_M	1.016	1.00
136_V	151_E	1.015	1.00
255_C	258_E	1.014	1.00
170_T	233_G	1.013	1.00
157_V	285_L	1.011	1.00
228_E	232_M	1.008	1.00
181_R	185_D	0.998	1.00
201_P	204_W	0.986	1.00
81_L	85_N	0.985	1.00
164_K	264_R	0.982	1.00
183_P	260_W	0.980	1.00
78_Q	82_D	0.975	1.00
78_Q	81_L	0.974	1.00
10_T	27_L	0.973	1.00
167_V	236_I	0.972	1.00
29_L	34_I	0.969	1.00
168_A	244_I	0.966	1.00
201_P	206_F	0.963	1.00
15_A	50_F	0.956	1.00
246_E	250_T	0.954	1.00
115_F	119_Y	0.952	1.00
11_F	59_L	0.945	1.00
14_V	20_F	0.944	1.00
75_D	79_I	0.943	1.00
118_E	290_T	0.941	1.00
66_L	70_L	0.938	1.00
134_D	137_Q	0.938	1.00
287_Y	290_T	0.926	1.00
220_L	229_A	0.925	1.00
278_S	281_L	0.919	1.00
169_A	173_Y	0.918	1.00
23_A	34_I	0.912	1.00
193_V	216_G	0.909	1.00
50_F	57_V	0.907	1.00
111_L	287_Y	0.899	1.00
40_T	43_Q	0.898	1.00
47_I	84_M	0.895	1.00
11_F	41_L	0.893	1.00
173_Y	176_R	0.893	1.00
123_K	215_A	0.889	1.00
173_Y	190_Q	0.887	1.00
15_A	63_G	0.886	1.00
98_N	143_G	0.886	1.00
140_F	143_G	0.880	1.00
22_A	26_E	0.878	1.00
127_T	134_D	0.878	1.00
98_N	145_R	0.873	1.00
153_D	273_N	0.871	1.00
203_H	207_A	0.869	1.00
272_P	275_Q	0.866	1.00
68_E	71_R	0.865	1.00
101_R	222_D	0.863	1.00
173_Y	177_Y	0.861	1.00
147_S	266_G	0.855	1.00
18_Q	58_S	0.853	1.00
169_A	174_F	0.852	1.00
21_R	25_D	0.850	1.00
244_I	247_Y	0.843	1.00
203_H	206_F	0.842	1.00
122_I	280_G	0.840	1.00
154_M	270_Y	0.838	1.00
286_D	290_T	0.837	1.00
185_D	188_N	0.837	1.00
72_P	75_D	0.834	1.00
6_S	37_S	0.834	1.00
191_C	214_V	0.833	1.00
177_Y	190_Q	0.833	1.00
97_I	142_A	0.833	1.00
168_A	237_G	0.831	1.00
65_N	87_F	0.823	1.00
174_F	179_K	0.823	1.00
27_L	34_I	0.822	1.00
53_T	56_S	0.812	1.00
277_M	282_R	0.810	1.00
190_Q	216_G	0.808	1.00
132_L	136_V	0.805	1.00
175_A	189_H	0.802	1.00
206_F	210_L	0.800	1.00
5_M	74_F	0.798	1.00
62_A	84_M	0.797	1.00
155_I	158_A	0.796	1.00
160_G	163_V	0.792	1.00
11_F	66_L	0.790	1.00
18_Q	64_S	0.787	1.00
39_K	48_R	0.787	1.00
127_T	140_F	0.781	1.00
14_V	38_I	0.779	1.00
93_G	280_G	0.779	1.00
113_V	234_A	0.778	1.00
31_S	35_S	0.778	1.00
247_Y	250_T	0.777	1.00
15_A	18_Q	0.777	1.00
172_E	176_R	0.772	1.00
248_L	251_G	0.769	1.00
16_R	67_Y	0.765	1.00
244_I	248_L	0.765	1.00
91_P	119_Y	0.764	1.00
77_I	80_M	0.764	1.00
170_T	234_A	0.763	1.00
17_N	23_A	0.762	1.00
184_H	187_L	0.762	1.00
76_E	80_M	0.761	1.00
14_V	50_F	0.758	1.00
79_I	83_E	0.757	1.00
182_H	259_D	0.752	1.00
164_K	262_T	0.751	1.00
18_Q	56_S	0.749	1.00
62_A	87_F	0.748	1.00
164_K	257_L	0.748	1.00
279_C	283_A	0.744	1.00
118_E	283_A	0.743	1.00
229_A	234_A	0.742	1.00
187_L	212_I	0.740	1.00
116_T	234_A	0.740	1.00
62_A	65_N	0.737	1.00
142_A	284_F	0.736	1.00
77_I	81_L	0.735	1.00
85_N	88_R	0.734	1.00
7_D	10_T	0.731	1.00
136_V	154_M	0.728	1.00
111_L	291_G	0.727	1.00
114_G	290_T	0.727	1.00
168_A	248_L	0.723	1.00
168_A	239_L	0.720	1.00
184_H	210_L	0.719	1.00
59_L	64_S	0.719	1.00
200_K	219_I	0.716	1.00
58_S	64_S	0.715	1.00
9_A	13_A	0.711	1.00
248_L	255_C	0.710	1.00
96_K	140_F	0.709	1.00
80_M	84_M	0.709	1.00
204_W	207_A	0.707	1.00
205_Q	208_K	0.706	1.00
70_L	73_A	0.703	1.00
222_D	225_A	0.702	1.00
14_V	34_I	0.699	1.00
176_R	254_E	0.698	1.00
51_N	60_T	0.698	1.00
20_F	34_I	0.698	1.00
201_P	205_Q	0.698	1.00
115_F	283_A	0.698	1.00
169_A	254_E	0.695	1.00
99_A	104_A	0.694	1.00
33_A	37_S	0.692	1.00
240_L	243_Q	0.691	1.00
144_V	288_V	0.687	1.00
182_H	260_W	0.686	1.00
170_T	173_Y	0.686	1.00
93_G	122_I	0.682	1.00
62_A	66_L	0.674	1.00
71_R	75_D	0.673	1.00
195_R	219_I	0.671	1.00
141_D	281_L	0.669	1.00
188_N	215_A	0.668	1.00
96_K	141_D	0.667	1.00
42_E	47_I	0.666	1.00
194_F	226_E	0.664	1.00
51_N	56_S	0.664	1.00
218_I	229_A	0.662	1.00
169_A	175_A	0.662	1.00
75_D	78_Q	0.661	1.00
123_K	219_I	0.661	1.00
64_S	67_Y	0.659	1.00
61_E	65_N	0.652	1.00
205_Q	209_E	0.652	1.00
20_F	56_S	0.651	1.00
204_W	208_K	0.650	1.00
66_L	84_M	0.649	1.00
180_P	257_L	0.645	1.00
283_A	287_Y	0.645	1.00
246_E	249_D	0.644	1.00
99_A	108_L	0.642	1.00
206_F	209_E	0.641	1.00
42_E	52_R	0.639	1.00
95_L	280_G	0.638	1.00
70_L	74_F	0.638	1.00
79_I	82_D	0.637	1.00
172_E	254_E	0.636	1.00
138_Q	272_P	0.635	1.00
172_E	175_A	0.631	1.00
172_E	233_G	0.630	1.00
6_S	40_T	0.626	1.00
23_A	27_L	0.625	1.00
191_C	236_I	0.624	1.00
38_I	42_E	0.623	1.00
25_D	28_G	0.622	1.00
160_G	267_F	0.620	1.00
69_R	73_A	0.619	1.00
9_A	12_F	0.619	1.00
171_P	251_G	0.618	1.00
195_R	221_D	0.611	1.00
135_I	270_Y	0.603	1.00
14_V	19_S	0.603	1.00
279_C	282_R	0.600	1.00
275_Q	278_S	0.599	1.00
167_V	186_L	0.598	1.00
105_R	228_E	0.594	1.00
142_A	285_L	0.593	1.00
65_N	84_M	0.592	1.00
200_K	203_H	0.592	1.00
82_D	86_D	0.590	1.00
174_F	177_Y	0.589	1.00
202_F	205_Q	0.588	1.00
92_T	123_K	0.587	1.00
167_V	238_Y	0.586	1.00
95_L	142_A	0.585	1.00
229_A	235_G	0.585	1.00
128_T	222_D	0.584	1.00
108_L	111_L	0.583	1.00
226_E	230_V	0.583	1.00
155_I	274_R	0.580	1.00
284_F	288_V	0.580	1.00
202_F	206_F	0.576	1.00
167_V	191_C	0.575	1.00
163_V	265_P	0.575	1.00
59_L	67_Y	0.575	1.00
45_L	84_M	0.574	1.00
32_S	36_H	0.572	1.00
178_G	181_R	0.572	1.00
6_S	10_T	0.571	1.00
146_L	265_P	0.570	1.00
33_A	36_H	0.568	1.00
45_L	66_L	0.568	1.00
110_S	114_G	0.568	1.00
175_A	178_G	0.567	1.00
110_S	113_V	0.567	1.00
207_A	214_V	0.567	1.00
135_I	154_M	0.565	1.00
128_T	221_D	0.565	1.00
50_F	59_L	0.560	1.00
165_L	238_Y	0.557	1.00
271_Y	282_R	0.556	1.00
9_A	74_F	0.555	1.00
220_L	225_A	0.555	1.00
196_Y	219_I	0.554	1.00
30_S	36_H	0.553	1.00
47_I	51_N	0.547	1.00
175_A	181_R	0.545	1.00
68_E	83_E	0.541	1.00
45_L	48_R	0.540	1.00
239_L	244_I	0.539	1.00
10_T	38_I	0.534	1.00
74_F	78_Q	0.533	1.00
174_F	178_G	0.532	1.00
223_V	240_L	0.531	1.00
173_Y	236_I	0.531	1.00
180_P	185_D	0.528	1.00
38_I	50_F	0.524	1.00
133_V	139_G	0.521	1.00
187_L	213_A	0.518	1.00
74_F	77_I	0.518	1.00
11_F	63_G	0.517	1.00
103_A	107_F	0.517	1.00
129_D	134_D	0.515	1.00
93_G	119_Y	0.515	1.00
144_V	269_I	0.514	1.00
159_I	269_I	0.513	1.00
105_R	222_D	0.512	1.00
10_T	23_A	0.509	1.00
29_L	37_S	0.507	1.00
20_F	31_S	0.506	1.00
48_R	62_A	0.505	1.00
20_F	52_R	0.503	1.00
18_Q	57_V	0.503	1.00
169_A	176_R	0.503	1.00
82_D	85_N	0.503	1.00
147_S	156_S	0.503	1.00
112_L	124_V	0.503	1.00
69_R	84_M	0.503	1.00
93_G	121_D	0.501	1.00
98_N	127_T	0.501	1.00
281_L	285_L	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
3fzvA	4	0.947	100	0.09	Contact Map
2esnA	3	0.9636	100	0.111	Contact Map
3szpA	3	0.9603	100	0.112	Contact Map
3hhgA	3	0.9702	100	0.115	Contact Map
1ixcA	4	0.9536	100	0.119	Contact Map
1uthA	2	0.7384	100	0.119	Contact Map
3fxqA	3	0.957	100	0.12	Contact Map
1al3A	1	0.7053	100	0.13	Contact Map
2h9bA	2	0.6854	100	0.131	Contact Map
2h98A	2	0.6854	100	0.132	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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