YHBJ - ECOLI - GREMLIN Contacts

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

YHBJ - UPF0042 nucleotide-binding protein YhbJ

UniProt:	P0A894	Sequences: MVLMIVSGRSGSGKSVALRALEDMGFYCVDNLPVVLLPDLARTLADREISAAVSIDVRNMPESPEIFEQAMSNLPDAFSPQLLFLDADRNTLIRRYSDTRRLHPLSSKNLSLESAIDKESDLLEPLRSRADLIVDTSEMSVHELAEMLRTRLLGKRERELTMVFESFGFKHGIPIDADYVFDVRFLPNPHWDPKLRPMTGLDKPVAAFLDRHTEVHNFIYQTRSYLELWLPMLETNNRSYLTVAIGCTGGKHRSVYIAEQLADYFRSRGKNVQSRHRTLEKRKP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12146
Length:	284 (278)
Sequences:	2249 (1482)
Seq/√Len:	88.9

ECOLI - YHBJ
BACSU - YVCJ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
177_A	244_A	7.231	1.00
203_K	207_A	5.667	1.00
201_L	259_E	4.944	1.00
198_M	204_P	4.692	1.00
164_F	258_A	3.722	1.00
221_Q	224_S	3.367	1.00
198_M	202_D	3.232	1.00
164_F	265_F	3.099	1.00
2_V	81_Q	3.076	1.00
181_F	222_T	3.069	1.00
262_A	274_S	3.010	1.00
89_R	117_D	2.816	1.00
89_R	120_S	2.714	1.00
91_T	137_S	2.704	1.00
227_E	264_Y	2.683	1.00
173_I	180_V	2.654	1.00
227_E	268_R	2.521	1.00
223_R	264_Y	2.511	1.00
142_H	191_W	2.477	1.00
190_H	197_P	2.381	1.00
219_I	257_I	2.377	1.00
210_D	256_Y	2.322	1.00
219_I	260_Q	2.320	1.00
88_D	91_T	2.305	1.00
179_Y	233_L	2.285	1.00
260_Q	263_D	2.276	1.00
226_L	261_L	2.111	1.00
214_E	235_T	2.072	1.00
245_I	261_L	2.037	1.00
209_L	256_Y	2.020	1.00
260_Q	264_Y	2.001	1.00
180_V	244_A	1.994	1.00
259_E	263_D	1.954	1.00
199_T	251_K	1.953	1.00
221_Q	228_L	1.935	1.00
9_R	86_D	1.905	1.00
206_A	256_Y	1.903	1.00
140_S	143_E	1.860	1.00
18_L	54_S	1.858	1.00
217_N	221_Q	1.856	1.00
93_I	113_E	1.817	1.00
29_V	40_L	1.814	1.00
39_D	42_R	1.808	1.00
132_L	151_R	1.762	1.00
220_Y	264_Y	1.684	1.00
147_M	150_T	1.620	1.00
203_K	206_A	1.619	1.00
70_A	80_P	1.616	1.00
162_M	243_V	1.606	1.00
183_V	257_I	1.592	1.00
259_E	274_S	1.585	1.00
6_V	83_L	1.581	1.00
185_F	218_F	1.575	1.00
3_L	41_A	1.575	1.00
127_R	133_I	1.574	1.00
179_Y	241_L	1.558	1.00
17_A	148_L	1.557	1.00
121_D	124_E	1.547	1.00
71_M	129_R	1.509	1.00
219_I	264_Y	1.502	1.00
143_E	146_E	1.493	1.00
258_A	274_S	1.481	1.00
177_A	180_V	1.478	1.00
162_M	230_L	1.478	1.00
118_K	121_D	1.466	0.99
218_F	222_T	1.455	0.99
111_S	114_S	1.446	0.99
223_R	227_E	1.418	0.99
213_T	217_N	1.412	0.99
2_V	79_S	1.407	0.99
88_D	138_E	1.407	0.99
111_S	165_E	1.400	0.99
37_L	53_V	1.394	0.99
86_D	127_R	1.371	0.99
113_E	117_D	1.363	0.99
215_V	257_I	1.358	0.99
124_E	128_S	1.343	0.99
4_M	21_L	1.332	0.99
263_D	266_R	1.322	0.99
141_V	191_W	1.291	0.99
214_E	232_M	1.283	0.99
42_R	76_D	1.276	0.99
24_M	148_L	1.272	0.99
216_H	220_Y	1.241	0.98
169_F	183_V	1.231	0.98
213_T	216_H	1.231	0.98
118_K	122_L	1.214	0.98
37_L	55_I	1.207	0.98
206_A	210_D	1.206	0.98
208_F	212_H	1.198	0.98
74_L	129_R	1.198	0.98
6_V	21_L	1.191	0.98
183_V	218_F	1.171	0.97
183_V	245_I	1.159	0.97
190_H	196_R	1.157	0.97
171_H	251_K	1.157	0.97
38_P	72_S	1.154	0.97
205_V	251_K	1.149	0.97
222_T	225_Y	1.146	0.97
6_V	54_S	1.146	0.97
9_R	120_S	1.144	0.97
16_V	98_D	1.138	0.97
139_M	147_M	1.137	0.97
96_Y	99_T	1.134	0.97
251_K	280_E	1.134	0.97
34_V	62_E	1.132	0.97
206_A	260_Q	1.131	0.97
210_D	219_I	1.131	0.97
68_E	71_M	1.121	0.97
18_L	28_C	1.114	0.97
263_D	267_S	1.113	0.97
163_V	275_R	1.111	0.96
192_D	208_F	1.107	0.96
168_G	171_H	1.107	0.96
168_G	278_T	1.092	0.96
71_M	75_P	1.089	0.96
233_L	278_T	1.076	0.96
187_P	212_H	1.056	0.95
222_T	245_I	1.041	0.95
198_M	205_V	1.040	0.95
165_E	244_A	1.036	0.95
227_E	265_F	1.031	0.95
164_F	261_L	1.018	0.94
147_M	151_R	1.016	0.94
159_E	271_N	0.998	0.94
217_N	220_Y	0.994	0.94
190_H	205_V	0.994	0.94
164_F	272_V	0.990	0.93
140_S	191_W	0.982	0.93
165_E	242_T	0.981	0.93
83_L	152_L	0.977	0.93
62_E	115_A	0.977	0.93
179_Y	229_W	0.972	0.93
34_V	63_S	0.967	0.93
207_A	211_R	0.967	0.93
210_D	260_Q	0.967	0.93
17_A	85_L	0.965	0.92
24_M	153_L	0.963	0.92
193_P	196_R	0.961	0.92
229_W	238_R	0.960	0.92
221_Q	225_Y	0.958	0.92
209_L	238_R	0.949	0.92
86_D	120_S	0.945	0.92
88_D	137_S	0.940	0.91
132_L	152_L	0.926	0.91
3_L	78_F	0.924	0.91
144_L	148_L	0.918	0.90
92_L	96_Y	0.914	0.90
66_I	126_L	0.910	0.90
190_H	199_T	0.903	0.90
69_Q	72_S	0.902	0.90
190_H	215_V	0.902	0.90
71_M	74_L	0.899	0.90
216_H	260_Q	0.894	0.89
192_D	196_R	0.893	0.89
162_M	265_F	0.886	0.89
112_L	115_A	0.877	0.88
68_E	72_S	0.871	0.88
220_Y	224_S	0.871	0.88
166_S	276_H	0.867	0.88
93_I	175_I	0.863	0.88
229_W	233_L	0.857	0.87
97_S	242_T	0.856	0.87
231_P	241_L	0.856	0.87
88_D	135_D	0.855	0.87
245_I	257_I	0.849	0.87
164_F	243_V	0.849	0.87
2_V	50_S	0.847	0.87
4_M	26_F	0.846	0.87
214_E	217_N	0.842	0.86
219_I	223_R	0.841	0.86
44_L	51_A	0.827	0.85
72_S	75_P	0.827	0.85
92_L	116_I	0.824	0.85
15_S	19_R	0.823	0.85
36_L	40_L	0.816	0.84
233_L	241_L	0.815	0.84
206_A	263_D	0.812	0.84
106_S	115_A	0.811	0.84
223_R	261_L	0.810	0.84
245_I	258_A	0.805	0.84
232_M	235_T	0.799	0.83
5_I	41_A	0.798	0.83
32_L	53_V	0.797	0.83
222_T	261_L	0.785	0.82
256_Y	259_E	0.781	0.82
79_S	159_E	0.780	0.82
72_S	76_D	0.779	0.82
42_R	46_D	0.778	0.82
201_L	274_S	0.777	0.81
148_L	152_L	0.775	0.81
145_A	149_R	0.775	0.81
102_L	161_T	0.775	0.81
26_F	191_W	0.773	0.81
214_E	226_L	0.768	0.81
12_S	24_M	0.757	0.80
230_L	270_K	0.753	0.79
190_H	251_K	0.748	0.79
27_Y	39_D	0.741	0.78
159_E	234_E	0.739	0.78
206_A	209_L	0.738	0.78
177_A	242_T	0.736	0.78
257_I	261_L	0.736	0.78
198_M	251_K	0.731	0.77
251_K	278_T	0.730	0.77
97_S	236_N	0.728	0.77
34_V	59_N	0.727	0.77
6_V	40_L	0.726	0.77
98_D	191_W	0.722	0.77
40_L	51_A	0.719	0.76
27_Y	87_A	0.717	0.76
225_Y	237_N	0.717	0.76
12_S	85_L	0.715	0.76
3_L	80_P	0.715	0.76
231_P	238_R	0.713	0.76
109_N	115_A	0.712	0.76
63_S	67_F	0.710	0.75
162_M	270_K	0.706	0.75
81_Q	131_D	0.706	0.75
66_I	93_I	0.706	0.75
32_L	56_D	0.705	0.75
248_T	278_T	0.703	0.75
66_I	73_N	0.702	0.74
190_H	242_T	0.700	0.74
24_M	96_Y	0.700	0.74
174_P	244_A	0.698	0.74
204_P	207_A	0.697	0.74
262_A	266_R	0.694	0.74
18_L	181_F	0.693	0.74
210_D	215_V	0.692	0.73
74_L	131_D	0.692	0.73
109_N	118_K	0.688	0.73
59_N	63_S	0.687	0.73
224_S	228_L	0.686	0.73
89_R	115_A	0.685	0.73
191_W	196_R	0.685	0.73
84_F	120_S	0.682	0.72
65_E	68_E	0.681	0.72
26_F	50_S	0.680	0.72
223_R	268_R	0.679	0.72
126_L	150_T	0.679	0.72
111_S	275_R	0.678	0.72
67_F	129_R	0.678	0.72
228_L	232_M	0.677	0.72
114_S	117_D	0.675	0.72
27_Y	32_L	0.673	0.71
217_N	228_L	0.672	0.71
129_R	133_I	0.671	0.71
111_S	115_A	0.667	0.71
93_I	169_F	0.664	0.70
6_V	275_R	0.664	0.70
106_S	111_S	0.663	0.70
160_L	241_L	0.661	0.70
225_Y	238_R	0.661	0.70
202_D	245_I	0.660	0.70
66_I	70_A	0.660	0.70
266_R	269_G	0.658	0.70
165_E	177_A	0.654	0.69
219_I	261_L	0.653	0.69
134_V	147_M	0.652	0.69
181_F	231_P	0.651	0.69
256_Y	260_Q	0.648	0.68
6_V	18_L	0.644	0.68
90_N	94_R	0.643	0.68
102_L	185_F	0.643	0.68
122_L	125_P	0.641	0.68
31_N	278_T	0.640	0.68
185_F	233_L	0.639	0.67
9_R	236_N	0.637	0.67
111_S	163_V	0.632	0.67
209_L	215_V	0.632	0.67
131_D	151_R	0.630	0.66
48_E	64_P	0.629	0.66
74_L	80_P	0.627	0.66
83_L	148_L	0.624	0.66
99_T	115_A	0.624	0.66
176_D	191_W	0.623	0.65
137_S	196_R	0.623	0.65
149_R	238_R	0.623	0.65
81_Q	151_R	0.621	0.65
82_L	126_L	0.620	0.65
218_F	257_I	0.619	0.65
192_D	197_P	0.619	0.65
70_A	82_L	0.618	0.65
97_S	240_Y	0.616	0.65
19_R	96_Y	0.615	0.64
232_M	265_F	0.614	0.64
36_L	96_Y	0.614	0.64
56_D	59_N	0.613	0.64
66_I	71_M	0.612	0.64
40_L	43_T	0.612	0.64
96_Y	240_Y	0.610	0.64
27_Y	187_P	0.610	0.64
3_L	53_V	0.607	0.63
14_K	40_L	0.605	0.63
3_L	81_Q	0.604	0.63
14_K	18_L	0.604	0.63
145_A	231_P	0.603	0.63
218_F	229_W	0.598	0.62
207_A	210_D	0.594	0.62
32_L	58_R	0.594	0.62
52_A	105_L	0.592	0.62
64_P	122_L	0.592	0.62
98_D	231_P	0.592	0.62
64_P	67_F	0.591	0.61
82_L	129_R	0.591	0.61
82_L	272_V	0.591	0.61
45_A	78_F	0.591	0.61
4_M	83_L	0.589	0.61
28_C	98_D	0.588	0.61
86_D	89_R	0.587	0.61
7_S	56_D	0.587	0.61
40_L	44_L	0.587	0.61
7_S	34_V	0.583	0.60
10_S	40_L	0.582	0.60
94_R	179_Y	0.580	0.60
37_L	105_L	0.580	0.60
154_G	216_H	0.580	0.60
39_D	53_V	0.579	0.60
258_A	261_L	0.578	0.60
191_W	240_Y	0.578	0.60
210_D	216_H	0.576	0.59
48_E	79_S	0.576	0.59
96_Y	186_L	0.573	0.59
62_E	73_N	0.573	0.59
38_P	53_V	0.572	0.59
3_L	51_A	0.572	0.59
97_S	176_D	0.572	0.59
94_R	130_A	0.571	0.59
29_V	197_P	0.570	0.59
145_A	237_N	0.570	0.59
136_T	258_A	0.570	0.59
139_M	143_E	0.568	0.58
30_D	178_D	0.567	0.58
28_C	106_S	0.565	0.58
201_L	204_P	0.565	0.58
114_S	275_R	0.564	0.58
103_H	255_V	0.563	0.58
74_L	79_S	0.562	0.58
14_K	99_T	0.561	0.57
217_N	232_M	0.561	0.57
21_L	226_L	0.560	0.57
32_L	40_L	0.560	0.57
116_I	230_L	0.559	0.57
160_L	234_E	0.559	0.57
37_L	69_Q	0.556	0.57
216_H	219_I	0.555	0.57
46_D	180_V	0.551	0.56
181_F	245_I	0.550	0.56
54_S	278_T	0.549	0.56
165_E	176_D	0.547	0.56
161_T	273_Q	0.547	0.56
59_N	191_W	0.547	0.56
67_F	71_M	0.546	0.55
102_L	145_A	0.546	0.55
41_A	80_P	0.545	0.55
127_R	237_N	0.544	0.55
168_G	233_L	0.543	0.55
181_F	241_L	0.543	0.55
97_S	173_I	0.542	0.55
91_T	251_K	0.539	0.54
92_L	255_V	0.538	0.54
69_Q	73_N	0.538	0.54
226_L	243_V	0.538	0.54
227_E	267_S	0.537	0.54
41_A	160_L	0.536	0.54
99_T	231_P	0.535	0.54
19_R	85_L	0.534	0.54
98_D	248_T	0.534	0.54
88_D	175_I	0.531	0.53
204_P	208_F	0.530	0.53
94_R	245_I	0.530	0.53
81_Q	152_L	0.530	0.53
36_L	39_D	0.529	0.53
230_L	237_N	0.529	0.53
94_R	126_L	0.528	0.53
212_H	215_V	0.527	0.53
54_S	130_A	0.527	0.53
41_A	78_F	0.527	0.53
40_L	98_D	0.526	0.53
97_S	142_H	0.525	0.53
112_L	240_Y	0.525	0.53
4_M	42_R	0.525	0.53
57_V	105_L	0.525	0.53
20_A	149_R	0.525	0.53
226_L	244_A	0.524	0.52
181_F	229_W	0.524	0.52
24_M	149_R	0.522	0.52
20_A	152_L	0.520	0.52
65_E	263_D	0.520	0.52
224_S	227_E	0.519	0.52
168_G	176_D	0.519	0.52
14_K	51_A	0.518	0.52
77_A	80_P	0.518	0.52
35_V	43_T	0.518	0.52
223_R	226_L	0.517	0.51
57_V	122_L	0.517	0.51
27_Y	34_V	0.516	0.51
29_V	32_L	0.515	0.51
69_Q	78_F	0.515	0.51
3_L	94_R	0.514	0.51
12_S	163_V	0.514	0.51
7_S	238_R	0.513	0.51
7_S	258_A	0.512	0.51
215_V	256_Y	0.512	0.51
82_L	143_E	0.512	0.51
44_L	251_K	0.511	0.51
16_V	141_V	0.511	0.51
2_V	54_S	0.508	0.50
206_A	259_E	0.505	0.50
51_A	78_F	0.504	0.50
53_V	174_P	0.504	0.50
91_T	94_R	0.503	0.50
221_Q	229_W	0.502	0.49
226_L	230_L	0.501	0.49
34_V	176_D	0.501	0.49
83_L	243_V	0.500	0.49

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
3nwjA	2	0.4965	99.7	0.852	Contact Map
3lw7A	2	0.493	99.7	0.859	Contact Map
2if2A	1	0.5246	99.6	0.863	Contact Map
1knqA	2	0.4965	99.6	0.869	Contact Map
3kb2A	2	0.5387	99.6	0.87	Contact Map
3trfA	2	0.5176	99.5	0.874	Contact Map
3vaaA	1	0.5282	99.5	0.874	Contact Map
2grjA	2	0.4824	99.5	0.876	Contact Map
2pezA	2	0.5106	99.5	0.876	Contact Map
1ckeA	1	0.5141	99.5	0.876	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 0.0095 seconds.