YKGA - ECOLI - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YKGA - Putative HTH-type transcriptional regulator YkgA

UniProt:	P77601	Sequences: MRYDKELTENEMIRQKILQQLLEWIECNLEHPISIEDIAQKSGYSRRNIQLLFRNFMHVPLGEYIRKRRLCRAAILVRLTAKSMLDIALSLHFDSQQSFSREFKKLFGCSPREYRHRDYWDLANIFPSFLIRQQQKTECRLINFPETPIFGNSFKYDIEVSNKSPDEEVKLRRHHLARCMKNFKTDIYFVSTFEPSTKSVDLLTVETFAGTVCEYADMPKEWTTTRGLYDPTHVIWTQA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13381
Length:	239 (223)
Sequences:	2796 (2153)
Seq/√Len:	144.2

ECOLI - YKGA ROB
BACSU - YBFP YDEE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_N	31_H	6.029	1.00
76_L	91_L	3.713	1.00
73_A	99_F	3.702	1.00
146_E	223_T	3.490	1.00
36_E	46_R	3.470	1.00
76_L	90_S	3.405	1.00
148_P	221_E	2.973	1.00
24_W	28_N	2.950	1.00
143_N	228_L	2.851	1.00
83_S	86_D	2.831	1.00
21_L	49_I	2.813	1.00
95_S	98_S	2.648	1.00
82_K	90_S	2.501	1.00
85_L	89_L	2.501	1.00
82_K	87_I	2.490	1.00
34_S	37_D	2.422	1.00
25_I	65_I	2.308	1.00
77_V	84_M	2.306	1.00
148_P	223_T	2.215	1.00
37_D	40_Q	2.179	1.00
26_E	68_R	2.179	1.00
146_E	226_R	2.148	1.00
53_F	64_Y	2.086	1.00
70_L	106_L	2.056	1.00
168_E	171_L	1.988	1.00
87_I	115_R	1.984	1.00
96_Q	100_S	1.972	1.00
167_E	170_K	1.935	1.00
14_R	52_L	1.903	1.00
170_K	174_H	1.892	1.00
189_F	205_V	1.887	1.00
100_S	110_S	1.887	1.00
85_L	96_Q	1.872	1.00
139_C	232_T	1.871	1.00
26_E	64_Y	1.807	1.00
29_L	68_R	1.792	1.00
21_L	41_K	1.783	1.00
59_V	67_K	1.780	1.00
80_T	115_R	1.724	1.00
138_E	233_H	1.703	1.00
64_Y	68_R	1.661	1.00
76_L	82_K	1.637	1.00
147_T	224_T	1.626	1.00
30_E	72_R	1.620	1.00
21_L	38_I	1.609	1.00
133_Q	137_T	1.558	1.00
151_G	206_E	1.548	1.00
89_L	96_Q	1.536	1.00
143_N	226_R	1.498	1.00
24_W	41_K	1.493	1.00
203_L	207_T	1.486	1.00
29_L	72_R	1.461	1.00
149_I	208_F	1.444	1.00
199_S	202_L	1.439	1.00
144_F	147_T	1.432	1.00
207_T	210_G	1.429	1.00
38_I	41_K	1.423	1.00
17_I	43_G	1.416	1.00
140_R	231_P	1.405	1.00
82_K	86_D	1.376	1.00
153_S	204_T	1.341	1.00
153_S	220_K	1.337	1.00
25_I	33_I	1.333	1.00
167_E	171_L	1.308	1.00
188_Y	191_S	1.284	1.00
113_E	117_R	1.280	1.00
205_V	209_A	1.274	1.00
142_I	231_P	1.272	1.00
205_V	210_G	1.270	1.00
153_S	206_E	1.270	1.00
193_F	204_T	1.254	1.00
30_E	90_S	1.233	1.00
205_V	208_F	1.223	1.00
158_I	161_S	1.210	1.00
150_F	211_T	1.208	1.00
35_I	50_Q	1.190	1.00
150_F	219_P	1.180	1.00
25_I	28_N	1.154	1.00
18_L	57_M	1.144	0.99
54_R	60_P	1.116	0.99
145_P	226_R	1.104	0.99
70_L	107_F	1.102	0.99
165_P	168_E	1.100	0.99
180_M	183_F	1.098	0.99
98_S	102_E	1.097	0.99
164_S	168_E	1.092	0.99
94_D	98_S	1.075	0.99
168_E	172_R	1.068	0.99
191_S	205_V	1.057	0.99
169_V	173_R	1.044	0.99
194_E	198_K	1.042	0.99
14_R	44_Y	1.042	0.99
160_V	163_K	1.037	0.99
101_R	105_K	1.037	0.99
63_E	66_R	1.036	0.99
151_G	222_W	1.035	0.99
31_H	37_D	1.031	0.99
17_I	20_Q	1.028	0.99
167_E	174_H	1.025	0.99
85_L	97_Q	1.025	0.99
20_Q	41_K	1.023	0.99
96_Q	112_R	1.011	0.99
178_R	181_K	1.002	0.99
42_S	49_I	0.996	0.99
100_S	111_P	0.990	0.98
113_E	116_H	0.982	0.98
25_I	38_I	0.976	0.98
170_K	173_R	0.970	0.98
139_C	230_D	0.964	0.98
192_T	195_P	0.961	0.98
74_A	114_Y	0.956	0.98
86_D	89_L	0.956	0.98
154_F	164_S	0.948	0.98
109_C	114_Y	0.947	0.98
61_L	65_I	0.941	0.98
97_Q	100_S	0.940	0.98
35_I	46_R	0.937	0.98
67_K	106_L	0.937	0.98
62_G	65_I	0.935	0.98
22_L	64_Y	0.930	0.98
157_D	160_V	0.924	0.98
63_E	67_K	0.924	0.98
37_D	41_K	0.916	0.97
139_C	142_I	0.915	0.97
99_F	189_F	0.909	0.97
154_F	170_K	0.908	0.97
25_I	61_L	0.905	0.97
175_H	178_R	0.902	0.97
84_M	112_R	0.889	0.97
48_N	52_L	0.887	0.97
50_Q	101_R	0.885	0.97
16_K	20_Q	0.879	0.97
134_Q	137_T	0.878	0.97
203_L	206_E	0.873	0.97
48_N	51_L	0.868	0.97
175_H	180_M	0.868	0.97
144_F	229_Y	0.866	0.96
148_P	214_E	0.865	0.96
71_C	107_F	0.864	0.96
15_Q	19_Q	0.864	0.96
93_F	236_W	0.856	0.96
67_K	71_C	0.848	0.96
99_F	103_F	0.846	0.96
187_I	191_S	0.845	0.96
22_L	68_R	0.843	0.96
188_Y	193_F	0.838	0.96
128_S	132_R	0.833	0.96
155_K	202_L	0.833	0.96
47_R	50_Q	0.829	0.95
147_T	186_D	0.825	0.95
168_E	174_H	0.822	0.95
78_R	118_D	0.818	0.95
84_M	115_R	0.810	0.95
104_K	113_E	0.808	0.95
123_A	127_P	0.808	0.95
80_T	87_I	0.807	0.95
20_Q	23_E	0.806	0.95
29_L	65_I	0.803	0.95
21_L	42_S	0.800	0.94
84_M	96_Q	0.793	0.94
85_L	95_S	0.791	0.94
50_Q	62_G	0.791	0.94
155_K	204_T	0.788	0.94
24_W	33_I	0.787	0.94
64_Y	71_C	0.787	0.94
34_S	93_F	0.783	0.94
49_I	97_Q	0.783	0.94
177_A	182_N	0.775	0.94
84_M	87_I	0.771	0.93
104_K	110_S	0.770	0.93
33_I	38_I	0.768	0.93
212_V	215_Y	0.766	0.93
47_R	136_K	0.764	0.93
201_D	208_F	0.763	0.93
141_L	230_D	0.760	0.93
176_L	180_M	0.751	0.92
72_R	75_I	0.748	0.92
47_R	51_L	0.745	0.92
188_Y	208_F	0.745	0.92
164_S	167_E	0.741	0.92
171_L	174_H	0.737	0.92
186_D	189_F	0.736	0.92
178_R	183_F	0.732	0.91
177_A	180_M	0.727	0.91
174_H	209_A	0.718	0.91
211_T	215_Y	0.718	0.91
173_R	219_P	0.715	0.90
141_L	228_L	0.710	0.90
62_G	66_R	0.706	0.90
232_T	236_W	0.705	0.90
20_Q	27_C	0.704	0.90
157_D	200_V	0.704	0.90
114_Y	117_R	0.696	0.89
213_C	216_A	0.695	0.89
129_F	132_R	0.692	0.89
184_K	191_S	0.689	0.89
45_S	51_L	0.688	0.89
151_G	220_K	0.687	0.89
186_D	210_G	0.682	0.88
184_K	187_I	0.679	0.88
22_L	53_F	0.678	0.88
206_E	211_T	0.676	0.88
23_E	27_C	0.676	0.88
68_R	151_G	0.676	0.88
75_I	79_L	0.672	0.88
93_F	98_S	0.672	0.88
17_I	44_Y	0.670	0.87
177_A	189_F	0.665	0.87
159_E	162_N	0.664	0.87
64_Y	93_F	0.664	0.87
68_R	91_L	0.662	0.87
46_R	50_Q	0.660	0.87
112_R	116_H	0.657	0.86
175_H	179_C	0.650	0.86
93_F	107_F	0.648	0.86
110_S	113_E	0.648	0.86
127_P	131_I	0.646	0.85
33_I	37_D	0.641	0.85
168_E	173_R	0.636	0.85
70_L	102_E	0.636	0.85
77_V	87_I	0.636	0.85
72_R	91_L	0.632	0.84
97_Q	101_R	0.632	0.84
148_P	215_Y	0.631	0.84
22_L	26_E	0.631	0.84
71_C	151_G	0.629	0.84
227_G	230_D	0.629	0.84
146_E	225_T	0.628	0.84
28_N	33_I	0.626	0.84
188_Y	210_G	0.625	0.84
60_P	63_E	0.624	0.83
66_R	70_L	0.622	0.83
44_Y	52_L	0.620	0.83
47_R	102_E	0.615	0.83
29_L	33_I	0.613	0.82
37_D	65_I	0.610	0.82
124_N	127_P	0.609	0.82
189_F	207_T	0.606	0.82
35_I	61_L	0.606	0.82
191_S	195_P	0.603	0.81
59_V	63_E	0.595	0.80
39_A	66_R	0.594	0.80
24_W	38_I	0.594	0.80
57_M	138_E	0.590	0.80
177_A	181_K	0.588	0.80
198_K	204_T	0.586	0.79
24_W	79_L	0.586	0.79
18_L	49_I	0.586	0.79
44_Y	49_I	0.585	0.79
195_P	199_S	0.584	0.79
180_M	190_V	0.584	0.79
54_R	137_T	0.583	0.79
71_C	75_I	0.582	0.79
156_Y	167_E	0.582	0.79
54_R	113_E	0.581	0.79
28_N	228_L	0.580	0.79
54_R	114_Y	0.580	0.79
69_R	91_L	0.580	0.79
181_K	184_K	0.579	0.79
49_I	102_E	0.576	0.78
68_R	71_C	0.576	0.78
33_I	78_R	0.576	0.78
154_F	167_E	0.575	0.78
86_D	144_F	0.573	0.78
49_I	61_L	0.572	0.78
128_S	146_E	0.572	0.78
19_Q	23_E	0.567	0.77
214_E	221_E	0.567	0.77
180_M	185_T	0.563	0.77
169_V	174_H	0.562	0.77
94_D	97_Q	0.562	0.77
123_A	126_F	0.561	0.76
152_N	219_P	0.560	0.76
153_S	192_T	0.556	0.76
163_K	207_T	0.555	0.76
201_D	204_T	0.550	0.75
152_N	174_H	0.550	0.75
107_F	114_Y	0.548	0.75
161_S	207_T	0.548	0.75
200_V	203_L	0.547	0.75
72_R	76_L	0.547	0.75
44_Y	47_R	0.546	0.75
62_G	97_Q	0.543	0.74
180_M	184_K	0.542	0.74
161_S	191_S	0.542	0.74
208_F	213_C	0.541	0.74
38_I	61_L	0.539	0.74
206_E	222_W	0.537	0.73
203_L	210_G	0.536	0.73
89_L	97_Q	0.535	0.73
176_L	179_C	0.533	0.73
98_S	234_V	0.530	0.72
39_A	92_H	0.530	0.72
14_R	50_Q	0.530	0.72
129_F	134_Q	0.529	0.72
191_S	203_L	0.529	0.72
183_F	186_D	0.529	0.72
76_L	107_F	0.528	0.72
121_D	124_N	0.527	0.72
184_K	188_Y	0.527	0.72
126_F	129_F	0.526	0.72
93_F	104_K	0.526	0.72
198_K	203_L	0.525	0.72
107_F	128_S	0.525	0.72
134_Q	138_E	0.525	0.72
35_I	49_I	0.525	0.72
193_F	202_L	0.525	0.72
76_L	80_T	0.524	0.72
187_I	190_V	0.523	0.71
66_R	95_S	0.523	0.71
93_F	114_Y	0.522	0.71
206_E	209_A	0.522	0.71
195_P	204_T	0.522	0.71
179_C	182_N	0.517	0.71
107_F	125_I	0.516	0.70
30_E	91_L	0.515	0.70
50_Q	57_M	0.515	0.70
151_G	190_V	0.514	0.70
129_F	145_P	0.513	0.70
38_I	161_S	0.512	0.70
103_F	111_P	0.511	0.70
22_L	57_M	0.511	0.70
36_E	89_L	0.509	0.69
100_S	128_S	0.508	0.69
196_S	199_S	0.508	0.69
203_L	220_K	0.507	0.69
45_S	48_N	0.503	0.68
203_L	208_F	0.503	0.68
133_Q	141_L	0.502	0.68
36_E	40_Q	0.502	0.68
14_R	17_I	0.502	0.68
54_R	61_L	0.502	0.68
172_R	175_H	0.501	0.68
77_V	228_L	0.500	0.68

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
1d5yA	1	0.9247	100	0.377	Contact Map
3gbgA	1	0.5021	100	0.525	Contact Map
1bl0A	1	0.4854	100	0.541	Contact Map
3oioA	1	0.4686	100	0.545	Contact Map
4fe7A	2	0.5021	100	0.546	Contact Map
3oouA	1	0.4393	100	0.549	Contact Map
3mn2A	1	0.4435	100	0.55	Contact Map
2k9sA	1	0.4435	100	0.552	Contact Map
3w6vA	1	0.4644	100	0.554	Contact Map
3lsgA	2	0.4268	100	0.558	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.

Page generated in 0.0078 seconds.