YJJG - ECOLI - GREMLIN Contacts

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YJJG - Pyrimidine 5'-nucleotidase YjjG

UniProt:	P0A8Y1	Sequences: MKWDWIFFDADETLFTFDSFTGLQRMFLDYSVTFTAEDFQDYQAVNKPLWVDYQNGAITSLQLQHGRFESWAERLNVEPGKLNEAFINAMAEICTPLPGAVSLLNAIRGNAKIGIITNGFSALQQVRLERTGLRDYFDLLVISEEVGVAKPNKKIFDYALEQAGNPDRSRVLMVGDTAESDILGGINAGLATCWLNAHHREQPEGIAPTWTVSSLHELEQLLCKH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12115
Length:	225 (197)
Sequences:	29594 (23488)
Seq/√Len:	1673.4

ECOLI - YJJG GPH YIGB YIEH YFBT YNIC PGMB YRFG YIHX YQAB
BACSU - YSAA YFNB YHCW PPAX PGMB
HALSA - Q9HQE2 Q9HSS2 Q9HP74 Q9HMC4
SULSO - Q7LX46 Q7LXL6 Q97ZU6 Q97WT6 Q97X58 Q97YZ1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
4_D	170_R	4.009	1.00
158_Y	162_Q	2.824	1.00
129_E	134_R	2.793	1.00
148_V	152_N	2.789	1.00
175_G	181_D	2.571	1.00
185_G	192_T	2.538	1.00
121_S	125_Q	2.491	1.00
101_V	105_N	2.378	1.00
105_N	136_Y	2.352	1.00
5_W	166_P	2.335	1.00
3_W	191_A	2.245	1.00
114_G	139_L	2.240	1.00
112_K	138_D	2.227	1.00
158_Y	161_E	2.185	1.00
121_S	145_E	2.171	1.00
116_I	155_I	2.148	1.00
139_L	162_Q	2.100	1.00
8_F	113_I	2.080	1.00
148_V	154_K	2.062	1.00
160_L	171_V	2.029	1.00
213_S	217_E	2.022	1.00
117_T	124_Q	1.990	1.00
182_I	192_T	1.954	1.00
186_I	209_T	1.915	1.00
167_D	170_R	1.848	1.00
6_I	111_A	1.837	1.00
183_L	187_N	1.833	1.00
108_R	136_Y	1.797	1.00
106_A	219_E	1.777	1.00
191_A	209_T	1.760	1.00
160_L	190_L	1.701	1.00
7_F	173_M	1.698	1.00
173_M	185_G	1.680	1.00
172_L	193_C	1.633	1.00
100_A	215_L	1.627	1.00
108_R	138_D	1.623	1.00
7_F	159_A	1.567	1.00
86_F	90_M	1.559	1.00
81_K	85_A	1.543	1.00
113_I	137_F	1.540	1.00
196_N	213_S	1.511	1.00
160_L	168_R	1.502	1.00
5_W	163_A	1.501	1.00
35_T	38_D	1.473	1.00
83_N	87_I	1.466	1.00
97_L	197_A	1.438	1.00
7_F	116_I	1.430	1.00
166_P	171_V	1.402	1.00
125_Q	134_R	1.390	1.00
82_L	86_F	1.380	1.00
3_W	172_L	1.365	1.00
29_D	85_A	1.358	1.00
114_G	163_A	1.351	1.00
103_L	215_L	1.348	1.00
10_A	115_I	1.348	1.00
6_I	107_I	1.344	1.00
153_K	157_D	1.343	1.00
193_C	212_V	1.325	1.00
25_R	29_D	1.318	1.00
196_N	211_T	1.314	1.00
6_I	174_V	1.307	1.00
193_C	210_W	1.288	1.00
214_S	217_E	1.282	1.00
85_A	88_N	1.282	1.00
10_A	15_F	1.266	1.00
13_T	174_V	1.263	1.00
85_A	89_A	1.245	1.00
106_A	109_G	1.240	1.00
14_L	100_A	1.237	1.00
141_V	162_Q	1.229	1.00
26_M	30_Y	1.213	1.00
103_L	219_E	1.206	1.00
125_Q	129_E	1.182	1.00
99_G	102_S	1.161	1.00
156_F	184_G	1.150	1.00
156_F	173_M	1.141	1.00
7_F	171_V	1.135	1.00
5_W	171_V	1.129	1.00
102_S	216_H	1.100	1.00
82_L	90_M	1.097	1.00
141_V	159_A	1.086	1.00
124_Q	142_I	1.084	1.00
108_R	113_I	1.079	1.00
29_D	81_K	1.076	1.00
25_R	89_A	1.071	1.00
10_A	124_Q	1.070	1.00
156_F	190_L	1.055	1.00
154_K	158_Y	1.052	1.00
5_W	112_K	1.049	1.00
73_E	76_N	1.048	1.00
157_D	161_E	1.034	1.00
132_G	135_D	1.034	1.00
21_T	25_R	1.030	1.00
154_K	157_D	1.027	1.00
72_A	75_L	1.027	1.00
25_R	85_A	1.022	1.00
96_P	133_L	1.020	1.00
126_V	130_R	1.019	1.00
105_N	109_G	1.010	1.00
21_T	24_Q	1.004	1.00
171_V	190_L	1.003	1.00
10_A	119_G	0.999	1.00
146_V	158_Y	0.999	1.00
84_E	88_N	0.996	1.00
104_L	137_F	0.989	1.00
65_H	69_E	0.976	1.00
186_I	192_T	0.975	1.00
25_R	28_L	0.969	1.00
43_Q	46_N	0.969	1.00
173_M	190_L	0.966	1.00
115_I	137_F	0.961	1.00
66_G	70_S	0.961	1.00
101_V	136_Y	0.956	1.00
157_D	188_A	0.953	1.00
116_I	159_A	0.951	1.00
186_I	207_A	0.950	1.00
126_V	129_E	0.947	1.00
11_D	17_F	0.947	1.00
159_A	163_A	0.944	1.00
81_K	84_E	0.935	1.00
121_S	142_I	0.934	1.00
27_F	32_V	0.922	1.00
24_Q	28_L	0.916	1.00
5_W	114_G	0.914	1.00
82_L	85_A	0.913	1.00
156_F	175_G	0.912	1.00
182_I	208_P	0.909	1.00
121_S	144_E	0.908	1.00
141_V	158_Y	0.906	1.00
66_G	69_E	0.906	1.00
96_P	101_V	0.904	1.00
34_F	39_F	0.902	1.00
139_L	163_A	0.901	1.00
69_E	73_E	0.893	1.00
172_L	191_A	0.885	1.00
99_G	214_S	0.884	1.00
36_A	39_F	0.881	1.00
7_F	190_L	0.876	1.00
191_A	210_W	0.873	1.00
102_S	105_N	0.870	1.00
212_V	218_L	0.866	1.00
11_D	119_G	0.864	1.00
21_T	93_I	0.860	1.00
38_D	41_D	0.858	1.00
184_G	188_A	0.855	1.00
180_S	183_L	0.844	1.00
157_D	168_R	0.843	1.00
10_A	127_R	0.839	1.00
147_G	154_K	0.837	1.00
70_S	73_E	0.826	1.00
163_A	166_P	0.823	1.00
194_W	211_T	0.821	1.00
117_T	142_I	0.815	1.00
15_F	127_R	0.814	1.00
7_F	163_A	0.812	1.00
99_G	216_H	0.808	1.00
177_T	180_S	0.806	1.00
174_V	193_C	0.803	1.00
192_T	209_T	0.799	1.00
97_L	195_L	0.798	1.00
35_T	39_F	0.796	1.00
104_L	136_Y	0.785	1.00
114_G	159_A	0.784	1.00
107_I	113_I	0.784	1.00
166_P	170_R	0.783	1.00
22_G	26_M	0.783	1.00
30_Y	81_K	0.782	1.00
113_I	136_Y	0.778	1.00
107_I	111_A	0.776	1.00
105_N	135_D	0.769	1.00
64_Q	67_R	0.769	1.00
101_V	132_G	0.764	1.00
11_D	117_T	0.757	1.00
168_R	190_L	0.756	1.00
124_Q	127_R	0.755	1.00
24_Q	36_A	0.752	1.00
102_S	106_A	0.749	1.00
4_D	111_A	0.747	1.00
72_A	76_N	0.746	1.00
15_F	131_T	0.744	1.00
142_I	145_E	0.740	1.00
118_N	149_A	0.733	1.00
182_I	194_W	0.728	1.00
83_N	90_M	0.724	1.00
3_W	111_A	0.723	1.00
97_L	100_A	0.719	1.00
86_F	89_A	0.706	1.00
37_E	40_Q	0.703	1.00
119_G	124_Q	0.702	1.00
4_D	166_P	0.701	1.00
40_Q	43_Q	0.697	1.00
174_V	218_L	0.697	1.00
70_S	74_R	0.694	1.00
13_T	181_D	0.692	1.00
193_C	218_L	0.692	1.00
145_E	162_Q	0.691	1.00
6_I	172_L	0.691	1.00
42_Y	45_V	0.686	1.00
83_N	86_F	0.683	1.00
68_F	71_W	0.682	1.00
202_Q	213_S	0.682	1.00
64_Q	68_F	0.679	1.00
41_D	44_A	0.678	1.00
101_V	135_D	0.678	1.00
84_E	87_I	0.673	1.00
112_K	166_P	0.671	1.00
4_D	112_K	0.671	1.00
96_P	131_T	0.668	1.00
19_S	95_T	0.666	1.00
183_L	186_I	0.663	1.00
139_L	159_A	0.663	1.00
156_F	181_D	0.662	1.00
212_V	215_L	0.661	1.00
11_D	176_D	0.656	1.00
153_K	187_N	0.647	1.00
118_N	180_S	0.645	1.00
7_F	114_G	0.642	1.00
128_L	134_R	0.641	1.00
91_A	126_V	0.641	1.00
195_L	215_L	0.640	1.00
113_I	138_D	0.635	1.00
173_M	181_D	0.632	1.00
155_I	159_A	0.630	1.00
16_T	95_T	0.630	1.00
20_F	94_C	0.629	1.00
197_A	215_L	0.629	1.00
3_W	170_R	0.629	1.00
82_L	89_A	0.628	1.00
67_R	71_W	0.625	1.00
73_E	77_V	0.625	1.00
124_Q	140_L	0.619	1.00
146_V	155_I	0.618	1.00
118_N	151_P	0.613	1.00
16_T	19_S	0.609	1.00
125_Q	140_L	0.608	1.00
141_V	155_I	0.604	1.00
68_F	72_A	0.603	1.00
17_F	119_G	0.603	1.00
15_F	94_C	0.600	1.00
64_Q	69_E	0.599	1.00
23_L	26_M	0.597	1.00
168_R	171_V	0.589	1.00
71_W	75_L	0.588	1.00
215_L	219_E	0.587	1.00
124_Q	128_L	0.586	1.00
23_L	27_F	0.586	1.00
173_M	184_G	0.580	1.00
69_E	79_P	0.580	1.00
12_E	18_D	0.579	1.00
216_H	219_E	0.578	1.00
143_S	155_I	0.577	1.00
11_D	127_R	0.577	1.00
160_L	166_P	0.574	1.00
196_N	201_E	0.572	1.00
155_I	184_G	0.571	1.00
72_A	77_V	0.571	1.00
105_N	108_R	0.570	1.00
160_L	188_A	0.570	1.00
100_A	104_L	0.569	1.00
157_D	160_L	0.568	1.00
40_Q	44_A	0.567	1.00
45_V	70_S	0.564	1.00
137_F	140_L	0.558	1.00
116_I	173_M	0.558	1.00
79_P	82_L	0.555	1.00
180_S	184_G	0.553	1.00
119_G	123_L	0.550	1.00
28_L	33_T	0.550	1.00
21_T	89_A	0.544	1.00
141_V	163_A	0.543	1.00
100_A	103_L	0.539	1.00
156_F	185_G	0.537	1.00
103_L	174_V	0.537	1.00
67_R	72_A	0.534	1.00
122_A	126_V	0.533	1.00
212_V	219_E	0.530	1.00
8_F	103_L	0.528	1.00
99_G	103_L	0.527	1.00
184_G	187_N	0.526	1.00
67_R	70_S	0.524	1.00
16_T	97_L	0.521	1.00
75_L	78_E	0.521	1.00
82_L	87_I	0.520	1.00
42_Y	46_N	0.519	1.00
139_L	142_I	0.518	1.00
69_E	72_A	0.513	1.00
183_L	206_I	0.512	1.00
103_L	107_I	0.510	1.00
14_L	115_I	0.506	1.00
87_I	90_M	0.504	1.00
26_M	29_D	0.504	1.00
79_P	83_N	0.504	1.00
122_A	125_Q	0.503	1.00
34_F	37_E	0.502	1.00
108_R	135_D	0.500	1.00
13_T	195_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
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
3qnmA	1	0.9822	100	0.29	Contact Map
3ed5A	1	1	100	0.292	Contact Map
1swvA	2	0.9867	100	0.311	Contact Map
3iruA	4	0.9911	100	0.314	Contact Map
3smvA	1	0.9778	100	0.318	Contact Map
2hdoA	1	0.9111	100	0.321	Contact Map
4uw9A	1	0.8667	100	0.325	Contact Map
2om6A	2	0.9911	100	0.328	Contact Map
3umcA	2	0.9778	100	0.328	Contact Map
3umgA	2	0.9778	100	0.331	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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