YCGJ - BACSU - GREMLIN Contacts

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YCGJ - Uncharacterized methyltransferase YcgJ

UniProt:	O31474	Sequences: MTNETPFSKNAEMYRDEKVFAEGEDLGLMIKTAECRAEHRVLDIGAGAGHTALAFSPYVQECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPDDSFDIITCRYAAHHFSDVRKAVREVARVLKQDGRFLLVDHYAPEDPVLDEFVNHLNRLRDPSHVRESSLSEWQAMFSANQLAYQDIQKWNLPIQYDSWIKRGGTPADREKQIITHLNHASDEARDTFCITLNQNGQPISFCLKAILIQGIKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	253 (214)
Sequences:	15810 (11997)
Seq/√Len:	820.1

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
40_R	61_E	3.512	1.00
125_E	128_R	2.860	1.00
69_K	91_Q	2.847	1.00
61_E	88_R	2.744	1.00
127_A	182_L	2.738	1.00
75_A	89_F	2.657	1.00
63_I	104_F	2.576	1.00
126_V	136_F	2.474	1.00
46_A	64_G	2.457	1.00
52_A	62_C	2.414	1.00
72_V	89_F	2.403	1.00
105_D	131_K	2.393	1.00
42_L	104_F	2.392	1.00
65_V	92_G	2.340	1.00
69_K	73_E	2.314	1.00
118_D	121_K	2.301	1.00
45_G	112_A	2.286	1.00
130_L	134_G	2.228	1.00
72_V	91_Q	2.209	1.00
107_I	126_V	2.157	1.00
99_F	104_F	2.111	1.00
63_I	90_Q	2.105	1.00
46_A	52_A	2.030	1.00
107_I	130_L	2.014	1.00
72_V	76_S	2.011	1.00
39_H	106_I	2.000	1.00
74_V	77_S	1.949	1.00
125_E	129_V	1.918	1.00
53_L	78_F	1.882	1.00
130_L	136_F	1.875	1.00
40_R	63_I	1.862	1.00
109_C	112_A	1.855	1.00
66_D	72_V	1.811	1.00
53_L	79_A	1.788	1.00
36_R	39_H	1.771	1.00
41_V	55_F	1.717	1.00
120_R	179_A	1.703	1.00
120_R	124_R	1.651	1.00
213_I	217_L	1.557	1.00
44_I	126_V	1.555	1.00
79_A	89_F	1.551	1.00
54_A	57_P	1.511	1.00
94_A	116_F	1.506	1.00
174_Q	178_S	1.488	1.00
40_R	131_K	1.483	1.00
221_S	225_R	1.478	1.00
73_E	76_S	1.478	1.00
63_I	88_R	1.448	1.00
122_A	126_V	1.439	1.00
70_E	73_E	1.428	1.00
116_F	122_A	1.419	1.00
15_R	48_A	1.414	1.00
121_K	124_R	1.398	1.00
169_S	172_E	1.396	1.00
77_S	81_E	1.387	1.00
112_A	116_F	1.377	1.00
92_G	98_P	1.372	1.00
41_V	106_I	1.369	1.00
53_L	57_P	1.360	1.00
155_H	159_L	1.355	1.00
64_G	89_F	1.339	1.00
28_L	32_T	1.331	1.00
198_S	201_K	1.330	1.00
52_A	64_G	1.302	1.00
40_R	104_F	1.301	1.00
67_A	93_T	1.298	1.00
175_A	179_A	1.296	1.00
15_R	78_F	1.292	1.00
101_D	128_R	1.291	1.00
156_L	159_L	1.291	1.00
199_W	202_R	1.288	1.00
93_T	96_S	1.286	1.00
44_I	94_A	1.285	1.00
126_V	130_L	1.276	1.00
73_E	77_S	1.268	1.00
46_A	75_A	1.260	1.00
42_L	107_I	1.254	1.00
45_G	109_C	1.239	1.00
51_T	110_R	1.234	1.00
199_W	203_G	1.230	1.00
79_A	87_V	1.228	1.00
54_A	58_Y	1.198	1.00
130_L	182_L	1.184	1.00
28_L	31_K	1.182	1.00
43_D	64_G	1.170	1.00
120_R	176_M	1.157	1.00
100_P	103_S	1.156	1.00
94_A	112_A	1.141	1.00
32_T	188_Q	1.131	1.00
27_G	31_K	1.121	1.00
97_L	125_E	1.114	1.00
65_V	97_L	1.114	1.00
155_H	158_R	1.103	1.00
194_I	198_S	1.102	1.00
221_S	224_A	1.097	1.00
64_G	75_A	1.097	1.00
56_S	86_N	1.081	1.00
32_T	186_D	1.078	1.00
213_I	216_H	1.077	1.00
97_L	129_V	1.071	1.00
38_E	60_Q	1.062	1.00
107_I	129_V	1.062	1.00
29_M	137_L	1.053	1.00
40_R	105_D	1.051	1.00
202_R	205_T	1.049	1.00
39_H	105_D	1.033	1.00
27_G	54_A	1.032	1.00
222_D	225_R	1.031	1.00
98_P	125_E	1.027	1.00
200_I	204_G	1.025	1.00
149_L	152_F	1.025	1.00
113_A	116_F	1.024	1.00
51_T	108_T	1.024	1.00
110_R	139_V	1.016	1.00
152_F	156_L	0.988	1.00
119_V	176_M	0.986	1.00
12_E	74_V	0.986	1.00
113_A	140_D	0.985	1.00
197_D	201_K	0.970	1.00
175_A	178_S	0.962	1.00
74_V	78_F	0.950	1.00
65_V	90_Q	0.947	1.00
217_L	220_A	0.934	1.00
157_N	161_D	0.933	1.00
43_D	62_C	0.927	1.00
46_A	66_D	0.914	1.00
42_L	129_V	0.908	1.00
113_A	138_L	0.907	1.00
33_A	137_L	0.906	1.00
48_A	71_M	0.904	1.00
95_E	116_F	0.903	1.00
79_A	84_V	0.902	1.00
220_A	224_A	0.900	1.00
77_S	80_Q	0.899	1.00
40_R	103_S	0.897	1.00
170_L	174_Q	0.897	1.00
15_R	74_V	0.894	1.00
206_P	210_E	0.893	1.00
31_K	58_Y	0.891	1.00
149_L	153_V	0.884	1.00
94_A	122_A	0.881	1.00
66_D	71_M	0.879	1.00
172_E	175_A	0.873	1.00
95_E	118_D	0.872	1.00
28_L	188_Q	0.871	1.00
24_E	27_G	0.869	1.00
23_G	27_G	0.869	1.00
191_N	194_I	0.863	1.00
195_Q	198_S	0.862	1.00
201_K	205_T	0.857	1.00
148_V	152_F	0.851	1.00
214_I	217_L	0.845	1.00
78_F	81_E	0.839	1.00
199_W	205_T	0.833	1.00
41_V	108_T	0.832	1.00
63_I	99_F	0.828	1.00
150_D	153_V	0.825	1.00
90_Q	99_F	0.821	1.00
35_C	39_H	0.815	1.00
190_W	194_I	0.814	1.00
55_F	108_T	0.814	1.00
174_Q	187_I	0.810	1.00
158_R	161_D	0.808	1.00
56_S	87_V	0.805	1.00
121_K	125_E	0.803	1.00
111_Y	114_H	0.793	1.00
27_G	58_Y	0.788	1.00
10_N	13_M	0.787	1.00
99_F	103_S	0.787	1.00
106_I	135_R	0.785	1.00
111_Y	141_H	0.784	1.00
217_L	221_S	0.783	1.00
201_K	204_G	0.780	1.00
41_V	62_C	0.774	1.00
18_K	21_A	0.772	1.00
95_E	117_S	0.770	1.00
13_M	16_D	0.758	1.00
206_P	209_R	0.753	1.00
92_G	97_L	0.748	1.00
216_H	219_H	0.740	1.00
68_T	71_M	0.740	1.00
153_V	157_N	0.739	1.00
154_N	157_N	0.738	1.00
76_S	80_Q	0.737	1.00
30_I	58_Y	0.735	1.00
220_A	225_R	0.735	1.00
104_F	129_V	0.733	1.00
113_A	123_V	0.730	1.00
200_I	205_T	0.729	1.00
96_S	125_E	0.717	1.00
101_D	125_E	0.717	1.00
218_N	222_D	0.714	1.00
219_H	223_E	0.708	1.00
212_Q	216_H	0.692	1.00
127_A	181_Q	0.692	1.00
52_A	89_F	0.685	1.00
43_D	65_V	0.685	1.00
123_V	180_N	0.683	1.00
39_H	60_Q	0.683	1.00
43_D	108_T	0.683	1.00
50_H	54_A	0.683	1.00
34_E	135_R	0.682	1.00
76_S	88_R	0.680	1.00
51_T	139_V	0.677	1.00
216_H	220_A	0.675	1.00
13_M	17_E	0.675	1.00
103_S	131_K	0.672	1.00
220_A	223_E	0.671	1.00
123_V	177_F	0.666	1.00
207_A	210_E	0.666	1.00
148_V	151_E	0.663	1.00
103_S	129_V	0.663	1.00
103_S	128_R	0.661	1.00
111_Y	115_H	0.660	1.00
109_C	116_F	0.657	1.00
44_I	122_A	0.657	1.00
66_D	91_Q	0.656	1.00
171_S	174_Q	0.656	1.00
192_L	195_Q	0.656	1.00
214_I	218_N	0.654	1.00
42_L	65_V	0.652	1.00
202_R	206_P	0.650	1.00
148_V	153_V	0.650	1.00
51_T	54_A	0.649	1.00
35_C	38_E	0.648	1.00
165_V	168_S	0.647	1.00
114_H	140_D	0.646	1.00
46_A	65_V	0.645	1.00
49_G	89_F	0.643	1.00
111_Y	139_V	0.639	1.00
127_A	180_N	0.639	1.00
154_N	159_L	0.637	1.00
49_G	75_A	0.637	1.00
52_A	87_V	0.630	1.00
18_K	22_E	0.629	1.00
168_S	172_E	0.627	1.00
39_H	131_K	0.625	1.00
95_E	121_K	0.624	1.00
44_I	107_I	0.622	1.00
210_E	213_I	0.622	1.00
184_Y	187_I	0.620	1.00
53_L	56_S	0.618	1.00
29_M	110_R	0.618	1.00
215_T	219_H	0.615	1.00
113_A	122_A	0.607	1.00
70_E	74_V	0.606	1.00
176_M	179_A	0.604	1.00
76_S	89_F	0.604	1.00
205_T	209_R	0.601	1.00
26_L	54_A	0.601	1.00
209_R	213_I	0.599	1.00
152_F	155_H	0.598	1.00
69_K	76_S	0.597	1.00
212_Q	217_L	0.595	1.00
166_R	172_E	0.595	1.00
153_V	156_L	0.592	1.00
151_E	154_N	0.591	1.00
207_A	211_K	0.591	1.00
153_V	159_L	0.588	1.00
177_F	182_L	0.587	1.00
67_A	91_Q	0.586	1.00
209_R	212_Q	0.586	1.00
79_A	83_G	0.585	1.00
96_S	121_K	0.584	1.00
12_E	16_D	0.584	1.00
38_E	41_V	0.583	1.00
53_L	87_V	0.582	1.00
95_E	122_A	0.579	1.00
177_F	180_N	0.578	1.00
32_T	35_C	0.577	1.00
61_E	86_N	0.576	1.00
109_C	138_L	0.570	1.00
190_W	193_P	0.569	1.00
200_I	203_G	0.566	1.00
193_P	196_Y	0.566	1.00
192_L	196_Y	0.565	1.00
185_Q	189_K	0.563	1.00
72_V	75_A	0.563	1.00
173_W	177_F	0.561	1.00
32_T	137_L	0.555	1.00
210_E	214_I	0.550	1.00
208_D	211_K	0.549	1.00
99_F	129_V	0.547	1.00
115_H	140_D	0.546	1.00
196_Y	205_T	0.546	1.00
172_E	176_M	0.545	1.00
102_D	131_K	0.544	1.00
147_P	151_E	0.544	1.00
44_I	65_V	0.539	1.00
128_R	131_K	0.539	1.00
17_E	20_F	0.538	1.00
39_H	135_R	0.537	1.00
26_L	51_T	0.537	1.00
51_T	55_F	0.534	1.00
79_A	85_E	0.533	1.00
135_R	138_L	0.533	1.00
98_P	129_V	0.532	1.00
113_A	119_V	0.529	1.00
177_F	184_Y	0.526	1.00
124_R	128_R	0.525	1.00
110_R	114_H	0.522	1.00
120_R	180_N	0.521	1.00
110_R	115_H	0.520	1.00
170_L	173_W	0.520	1.00
57_P	84_V	0.520	1.00
193_P	197_D	0.519	1.00
45_G	67_A	0.516	1.00
124_R	127_A	0.512	1.00
40_R	102_D	0.511	1.00
106_I	137_L	0.511	1.00
147_P	150_D	0.509	1.00
115_H	141_H	0.507	1.00
17_E	201_K	0.507	1.00
136_F	177_F	0.506	1.00
45_G	116_F	0.505	1.00
199_W	204_G	0.502	1.00
92_G	96_S	0.502	1.00
212_Q	220_A	0.502	1.00
64_G	87_V	0.501	1.00
34_E	58_Y	0.501	1.00
213_I	220_A	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
1vl5A	1	0.9091	100	0.334	Contact Map
2yqzA	1	0.9723	100	0.353	Contact Map
1xxlA	1	0.917	100	0.356	Contact Map
3ccfA	1	0.9051	100	0.363	Contact Map
4hg2A	1	0.9012	100	0.37	Contact Map
2p35A	2	0.9209	100	0.373	Contact Map
4pneA	2	0.9486	100	0.387	Contact Map
3g5tA	1	0.9842	100	0.392	Contact Map
2o57A	2	0.9723	100	0.399	Contact Map
3egeA	1	0.8893	100	0.412	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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