UBIG - ECOLI - GREMLIN Contacts

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UBIG - Ubiquinone biosynthesis O-methyltransferase

UniProt:	P17993	Sequences: MNAEKSPVNHNVDHEEIAKFEAVASRWWDLEGEFKPLHRINPLRLGYIAERAGGLFGKKVLDVGCGGGILAESMAREGATVTGLDMGFEPLQVAKLHALESGIQVDYVQETVEEHAAKHAGQYDVVTCMEMLEHVPDPQSVVRACAQLVKPGGDVFFSTLNRNGKSWLMAVVGAEYILRMVPKGTHDVKKFIKPAELLGWVDQTSLKERHITGLHYNPITNTFKLGPGVDVNYMLHTQNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11143
Length:	240 (196)
Sequences:	18433 (13630)
Seq/√Len:	973.6

ECOLI - UBIG UBIE SMTA CMOA BIOC YJHP TEHB TAM CMOB YAFE YAFS CFA RLMA
BACSU - YBAJ MENG YCGJ YRRT YXBB YODH YRHH YQEM YDAC YXJB
HALSA - Q9HR81 Q9HND6 Q9HMT2 Q9HRX3 ARSM Q9HR63 Q9HQ85 Q9HSK6
SULSO - Q7LXN7 Q97ZU8 Q97X57 Q97WT7 Q97XD7 Q97WN4 Q97WH3 Q97YX4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
59_K	80_T	3.173	1.00
146_A	206_L	2.918	1.00
88_F	109_Q	2.885	1.00
65_C	83_G	2.875	1.00
139_Q	203_Q	2.747	1.00
64_G	131_M	2.495	1.00
124_D	150_K	2.466	1.00
82_T	123_Y	2.440	1.00
144_A	147_Q	2.366	1.00
94_A	107_Y	2.347	1.00
84_L	110_E	2.339	1.00
145_C	155_V	2.310	1.00
91_L	107_Y	2.303	1.00
71_A	81_V	2.282	1.00
118_K	123_Y	2.264	1.00
80_T	106_D	2.224	1.00
61_L	123_Y	2.198	1.00
88_F	92_Q	2.177	1.00
91_L	109_Q	2.142	1.00
82_T	108_V	2.108	1.00
149_V	153_G	2.105	1.00
126_V	145_C	2.086	1.00
76_R	101_S	2.049	1.00
93_V	96_L	2.044	1.00
63_V	145_C	2.018	1.00
138_P	200_W	1.956	1.00
126_V	149_V	1.929	1.00
139_Q	143_R	1.929	1.00
60_V	74_M	1.792	1.00
72_E	98_A	1.786	1.00
198_L	202_D	1.774	1.00
98_A	107_Y	1.751	1.00
21_E	87_G	1.741	1.00
63_V	112_V	1.729	1.00
137_D	140_S	1.728	1.00
149_V	155_V	1.727	1.00
55_L	58_K	1.712	1.00
58_K	125_V	1.702	1.00
59_K	82_T	1.699	1.00
139_Q	200_W	1.688	1.00
193_K	196_E	1.685	1.00
144_A	148_L	1.631	1.00
120_A	147_Q	1.574	1.00
72_E	97_H	1.568	1.00
65_C	71_A	1.567	1.00
89_E	92_Q	1.530	1.00
199_G	203_Q	1.525	1.00
85_D	91_L	1.512	1.00
21_E	89_E	1.495	1.00
140_S	143_R	1.495	1.00
71_A	83_G	1.493	1.00
59_K	150_K	1.490	1.00
60_V	125_V	1.466	1.00
91_L	95_K	1.454	1.00
131_M	135_V	1.445	1.00
86_M	111_T	1.426	1.00
82_T	106_D	1.425	1.00
119_H	122_Q	1.423	1.00
135_V	141_V	1.401	1.00
111_T	114_E	1.396	1.00
142_V	201_V	1.368	1.00
149_V	206_L	1.366	1.00
139_Q	204_T	1.345	1.00
73_S	76_R	1.343	1.00
59_K	123_Y	1.294	1.00
49_A	77_E	1.293	1.00
59_K	124_D	1.288	1.00
112_V	131_M	1.286	1.00
128_C	131_M	1.285	1.00
110_E	116_A	1.276	1.00
92_Q	95_K	1.271	1.00
17_I	21_E	1.240	1.00
61_L	126_V	1.204	1.00
58_K	79_A	1.191	1.00
75_A	104_Q	1.177	1.00
57_G	79_A	1.174	1.00
98_A	105_V	1.174	1.00
133_E	159_T	1.172	1.00
59_K	122_Q	1.160	1.00
83_G	107_Y	1.157	1.00
64_G	128_C	1.122	1.00
146_A	204_T	1.120	1.00
108_V	118_K	1.115	1.00
126_V	148_L	1.110	1.00
143_R	204_T	1.107	1.00
116_A	144_A	1.101	1.00
28_W	67_G	1.089	1.00
46_G	50_E	1.085	1.00
26_R	29_D	1.082	1.00
65_C	94_A	1.082	1.00
199_G	202_D	1.074	1.00
84_L	115_H	1.067	1.00
95_K	99_L	1.063	1.00
72_E	101_S	1.062	1.00
198_L	211_I	1.061	1.00
73_S	77_E	1.027	1.00
48_I	156_F	0.993	1.00
196_E	199_G	0.991	1.00
130_E	133_E	0.987	1.00
84_L	108_V	0.978	1.00
46_G	73_S	0.977	1.00
115_H	148_L	0.976	1.00
93_V	97_H	0.974	1.00
83_G	94_A	0.972	1.00
47_Y	50_E	0.966	1.00
60_V	81_V	0.948	1.00
96_L	99_L	0.948	1.00
68_G	94_A	0.946	1.00
92_Q	96_L	0.943	1.00
141_V	145_C	0.931	1.00
41_N	44_R	0.923	1.00
18_A	22_A	0.921	1.00
61_L	148_L	0.918	1.00
72_E	76_R	0.914	1.00
145_C	149_V	0.909	1.00
96_L	100_E	0.902	1.00
58_K	124_D	0.898	1.00
74_M	127_T	0.895	1.00
98_A	103_I	0.895	1.00
60_V	127_T	0.894	1.00
138_P	192_I	0.894	1.00
194_P	213_G	0.891	1.00
143_R	147_Q	0.884	1.00
76_R	103_I	0.882	1.00
82_T	118_K	0.881	1.00
20_F	134_H	0.879	1.00
47_Y	51_R	0.871	1.00
70_L	129_M	0.871	1.00
113_E	137_D	0.870	1.00
112_V	135_V	0.859	1.00
85_D	90_P	0.856	1.00
67_G	90_P	0.855	1.00
130_E	158_S	0.854	1.00
87_G	90_P	0.846	1.00
54_G	58_K	0.843	1.00
71_A	105_V	0.839	1.00
71_A	107_Y	0.838	1.00
125_V	153_G	0.838	1.00
132_L	142_V	0.834	1.00
130_E	134_H	0.833	1.00
70_L	127_T	0.832	1.00
132_L	135_V	0.824	1.00
142_V	197_L	0.823	1.00
62_D	65_C	0.820	1.00
115_H	144_A	0.812	1.00
142_V	204_T	0.810	1.00
20_F	133_E	0.810	1.00
114_E	140_S	0.809	1.00
39_R	42_P	0.802	1.00
28_W	97_H	0.801	1.00
118_K	122_Q	0.793	1.00
132_L	141_V	0.788	1.00
97_H	101_S	0.767	1.00
118_K	148_L	0.764	1.00
122_Q	150_K	0.763	1.00
155_V	201_V	0.762	1.00
200_W	204_T	0.760	1.00
47_Y	212_T	0.754	1.00
24_A	28_W	0.752	1.00
140_S	144_A	0.752	1.00
51_R	54_G	0.742	1.00
69_I	73_S	0.725	1.00
60_V	79_A	0.722	1.00
132_L	157_F	0.721	1.00
125_V	154_D	0.720	1.00
128_C	157_F	0.719	1.00
51_R	212_T	0.717	1.00
98_A	101_S	0.716	1.00
37_L	40_I	0.715	1.00
67_G	97_H	0.714	1.00
181_V	184_G	0.701	1.00
128_C	135_V	0.695	1.00
98_A	102_G	0.692	1.00
120_A	144_A	0.692	1.00
175_E	179_R	0.687	1.00
95_K	106_D	0.686	1.00
134_H	159_T	0.686	1.00
120_A	148_L	0.681	1.00
69_I	97_H	0.680	1.00
62_D	83_G	0.679	1.00
63_V	126_V	0.674	1.00
17_I	86_M	0.671	1.00
55_L	79_A	0.671	1.00
115_H	118_K	0.669	1.00
25_S	93_V	0.667	1.00
52_A	125_V	0.666	1.00
63_V	84_L	0.666	1.00
46_G	77_E	0.666	1.00
115_H	123_Y	0.656	1.00
23_V	26_R	0.655	1.00
70_L	74_M	0.655	1.00
181_V	186_H	0.652	1.00
97_H	100_E	0.648	1.00
20_F	23_V	0.646	1.00
175_E	178_L	0.644	1.00
88_F	95_K	0.642	1.00
68_G	107_Y	0.639	1.00
26_R	30_L	0.636	1.00
38_H	41_N	0.636	1.00
202_D	208_E	0.636	1.00
129_M	158_S	0.633	1.00
37_L	41_N	0.631	1.00
194_P	198_L	0.630	1.00
110_E	115_H	0.628	1.00
75_A	103_I	0.627	1.00
132_L	138_P	0.627	1.00
59_K	79_A	0.627	1.00
64_G	135_V	0.624	1.00
91_L	94_A	0.619	1.00
142_V	200_W	0.618	1.00
45_L	49_A	0.617	1.00
162_R	193_K	0.616	1.00
40_I	43_L	0.616	1.00
189_K	192_I	0.615	1.00
89_E	93_V	0.614	1.00
44_R	47_Y	0.612	1.00
51_R	210_H	0.611	1.00
59_K	121_G	0.611	1.00
72_E	75_A	0.610	1.00
119_H	148_L	0.606	1.00
40_I	44_R	0.606	1.00
65_C	85_D	0.604	1.00
95_K	107_Y	0.604	1.00
133_E	160_L	0.602	1.00
42_P	46_G	0.602	1.00
132_L	159_T	0.600	1.00
72_E	107_Y	0.599	1.00
50_E	53_G	0.597	1.00
121_G	151_P	0.591	1.00
27_W	30_L	0.585	1.00
143_R	203_Q	0.584	1.00
130_E	160_L	0.583	1.00
43_L	46_G	0.581	1.00
157_F	201_V	0.580	1.00
195_A	199_G	0.578	1.00
25_S	89_E	0.573	1.00
45_L	73_S	0.573	1.00
95_K	98_A	0.572	1.00
200_W	203_Q	0.571	1.00
20_F	28_W	0.571	1.00
28_W	31_E	0.569	1.00
128_C	145_C	0.568	1.00
201_V	204_T	0.563	1.00
159_T	197_L	0.563	1.00
53_G	154_D	0.559	1.00
17_I	109_Q	0.557	1.00
78_G	81_V	0.556	1.00
180_M	184_G	0.553	1.00
99_L	102_G	0.553	1.00
25_S	96_L	0.553	1.00
24_A	90_P	0.550	1.00
174_A	177_I	0.549	1.00
36_P	40_I	0.549	1.00
65_C	107_Y	0.549	1.00
72_E	103_I	0.547	1.00
49_A	54_G	0.545	1.00
72_E	94_A	0.545	1.00
208_E	211_I	0.541	1.00
122_Q	147_Q	0.539	1.00
65_C	91_L	0.537	1.00
162_R	196_E	0.536	1.00
70_L	133_E	0.535	1.00
142_V	157_F	0.533	1.00
114_E	144_A	0.532	1.00
196_E	200_W	0.532	1.00
113_E	141_V	0.530	1.00
171_V	175_E	0.530	1.00
100_E	103_I	0.529	1.00
166_S	170_A	0.528	1.00
169_M	172_V	0.526	1.00
62_D	134_H	0.525	1.00
201_V	206_L	0.525	1.00
183_K	186_H	0.524	1.00
173_G	176_Y	0.521	1.00
147_Q	150_K	0.518	1.00
90_P	130_E	0.518	1.00
195_A	198_L	0.518	1.00
128_C	141_V	0.515	1.00
170_A	173_G	0.515	1.00
62_D	127_T	0.512	1.00
21_E	88_F	0.511	1.00
198_L	208_E	0.511	1.00
155_V	206_L	0.511	1.00
176_Y	179_R	0.510	1.00
75_A	105_V	0.506	1.00
41_N	45_L	0.505	1.00
121_G	148_L	0.504	1.00
41_N	48_I	0.504	1.00
160_L	189_K	0.502	1.00
34_F	41_N	0.501	1.00
80_T	104_Q	0.501	1.00
174_A	179_R	0.501	1.00
36_P	39_R	0.500	1.00
34_F	37_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
4kdcA	1	0.9042	100	0.304	Contact Map
4kdrA	1	0.8625	100	0.34	Contact Map
4obxA	2	0.8417	100	0.417	Contact Map
2o57A	2	0.925	100	0.422	Contact Map
4htfA	2	0.9083	100	0.426	Contact Map
4pneA	2	0.9292	100	0.427	Contact Map
4fsdA	1	0.8167	100	0.432	Contact Map
1y8cA	1	0.8792	100	0.433	Contact Map
3bkxA	2	0.9333	100	0.436	Contact Map
1vl5A	1	0.8042	100	0.437	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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