YKCC - BACSU - GREMLIN Contacts

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YKCC - Uncharacterized glycosyltransferase YkcC

UniProt:	O34319	Sequences: MSRHIQYSIVVPVYNEELVIHETYQRLKEVMDQTKENYELLFVNDGSKDRSIEILREHSLIDPRVKIIDFSRNFGHQIAITAGMDYAQGNAIVVIDADLQDPPELILEMIEKWKEGYEVVYAVRTKRKGETFFKKQTAAMFYRLLSGMTDIDIPIDTGDFRLMDRKVCDEMKRLKEKNPFVRGLVSWVGFKQTAVEYVRDERLAGETKYPLKKMLKLSMDGITTFSHKPLKLASYAGILMSGTGFLYMFIVLYLKLFTDSTITGWSSLIVIQLLFSGIVLLILGVIGEYIGRIYDEAKDRPLYIVQKSYGIENKRLYRDQHMS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (278)
Sequences:	17131 (13738)
Seq/√Len:	823.9

ECOLI - ARNC GTRB YAIP PGAC YIBD WCAA WCAE
BACSU - YKCC CSBB YKOT YDAM EPSH GGAA EPSE TUAG CGED EPSJ GGAB SPSA YFNE
HALSA - Q9HQQ6 Q9HSB1 Q9HQP8 Q9HQP4 Q9HR08 Q9HSC8 Q9HQP3 Q9HNK3
SULSO - Q97TY0 Q97W52 Q97UK7 Q7LXY2 Q97WK7 Q97YM4 Q97TZ0 Q7LXF7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
17_E	50_R	4.898	1.00
44_N	69_D	4.446	1.00
165_R	169_D	4.259	1.00
50_R	53_E	3.241	1.00
117_Y	193_T	3.145	1.00
8_S	89_G	3.005	1.00
55_L	67_I	3.003	1.00
8_S	39_E	2.888	1.00
52_I	69_D	2.812	1.00
91_A	113_W	2.795	1.00
39_E	66_K	2.711	1.00
112_K	115_E	2.608	1.00
6_Q	90_N	2.604	1.00
52_I	56_R	2.591	1.00
43_V	83_G	2.589	1.00
13_V	51_S	2.579	1.00
44_N	47_S	2.468	1.00
112_K	193_T	2.425	1.00
21_H	57_E	2.411	1.00
21_H	54_I	2.368	1.00
21_H	25_Q	2.349	1.00
93_V	162_L	2.268	1.00
167_V	190_F	2.266	1.00
52_I	67_I	2.249	1.00
16_E	97_A	2.217	1.00
42_F	55_L	2.129	1.00
113_W	162_L	2.127	1.00
25_Q	58_H	2.122	1.00
91_A	162_L	2.082	1.00
108_E	197_Y	2.050	1.00
118_E	164_D	2.046	1.00
24_Y	58_H	2.029	1.00
54_I	57_E	1.981	1.00
112_K	195_V	1.979	1.00
6_Q	37_N	1.956	1.00
8_S	41_L	1.952	1.00
180_F	184_L	1.941	1.00
70_F	82_A	1.933	1.00
76_H	80_I	1.927	1.00
8_S	87_A	1.885	1.00
6_Q	88_Q	1.884	1.00
53_E	57_E	1.873	1.00
56_R	69_D	1.869	1.00
50_R	54_I	1.861	1.00
7_Y	110_I	1.842	1.00
108_E	111_E	1.823	1.00
170_E	190_F	1.810	1.00
15_N	48_K	1.805	1.00
170_E	188_V	1.786	1.00
34_T	107_L	1.780	1.00
109_M	162_L	1.780	1.00
10_V	83_G	1.753	1.00
39_E	89_G	1.743	1.00
91_A	110_I	1.711	1.00
111_E	114_K	1.681	1.00
25_Q	29_E	1.651	1.00
93_V	106_I	1.649	1.00
118_E	190_F	1.614	1.00
125_T	198_V	1.584	1.00
82_A	86_Y	1.575	1.00
28_K	62_D	1.552	1.00
68_I	86_Y	1.537	1.00
80_I	94_V	1.502	1.00
11_V	23_T	1.502	1.00
17_E	54_I	1.486	1.00
14_Y	73_N	1.478	1.00
57_E	61_I	1.461	1.00
166_K	170_E	1.444	1.00
34_T	37_N	1.443	1.00
84_M	168_C	1.443	1.00
15_N	47_S	1.442	1.00
113_W	164_D	1.439	1.00
22_E	25_Q	1.412	1.00
84_M	92_I	1.411	1.00
119_V	192_Q	1.394	1.00
24_Y	62_D	1.391	1.00
10_V	43_V	1.389	1.00
43_V	79_A	1.376	1.00
6_Q	89_G	1.374	1.00
39_E	88_Q	1.363	1.00
119_V	185_V	1.362	1.00
13_V	97_A	1.361	1.00
146_S	149_T	1.360	1.00
143_R	146_S	1.358	1.00
26_R	104_E	1.356	1.00
123_V	196_E	1.340	1.00
7_Y	106_I	1.335	1.00
44_N	52_I	1.328	1.00
87_A	165_R	1.315	1.00
104_E	108_E	1.310	1.00
26_R	101_D	1.302	1.00
92_I	168_C	1.296	1.00
22_E	203_L	1.261	1.00
24_Y	42_F	1.238	1.00
101_D	105_L	1.232	1.00
213_K	216_K	1.232	1.00
13_V	42_F	1.198	1.00
41_L	66_K	1.168	1.00
82_A	85_D	1.165	1.00
59_S	65_V	1.151	1.00
25_Q	61_I	1.148	1.00
95_I	101_D	1.146	1.00
66_K	86_Y	1.137	1.00
131_T	134_K	1.136	1.00
22_E	26_R	1.126	1.00
54_I	58_H	1.123	1.00
21_H	58_H	1.122	1.00
26_R	100_Q	1.113	1.00
132_F	135_K	1.110	1.00
9_I	106_I	1.110	1.00
92_I	165_R	1.109	1.00
11_V	97_A	1.102	1.00
28_K	64_R	1.099	1.00
213_K	217_L	1.090	1.00
164_D	167_V	1.087	1.00
101_D	199_R	1.084	1.00
167_V	185_V	1.083	1.00
176_E	179_P	1.078	1.00
143_R	147_G	1.073	1.00
85_D	172_K	1.069	1.00
53_E	56_R	1.066	1.00
76_H	96_D	1.064	1.00
45_D	73_N	1.055	1.00
13_V	16_E	1.048	1.00
132_F	136_Q	1.032	1.00
83_G	87_A	1.030	1.00
20_I	54_I	1.014	1.00
137_T	140_M	1.013	1.00
109_M	122_A	1.012	1.00
166_K	169_D	1.005	1.00
217_L	221_G	0.999	1.00
68_I	82_A	0.996	1.00
91_A	164_D	0.994	1.00
124_R	159_D	0.991	1.00
237_G	241_S	0.990	1.00
255_K	258_T	0.985	1.00
156_D	161_R	0.975	1.00
112_K	120_V	0.975	1.00
207_T	210_P	0.974	1.00
9_I	93_V	0.966	1.00
45_D	75_G	0.958	1.00
195_V	198_V	0.957	1.00
219_M	223_T	0.955	1.00
23_T	27_L	0.955	1.00
275_F	279_V	0.952	1.00
11_V	27_L	0.939	1.00
24_Y	28_K	0.937	1.00
38_Y	64_R	0.932	1.00
105_L	160_F	0.932	1.00
105_L	108_E	0.929	1.00
81_T	85_D	0.928	1.00
220_D	223_T	0.924	1.00
93_V	105_L	0.923	1.00
170_E	173_R	0.914	1.00
16_E	19_V	0.913	1.00
29_E	103_P	0.908	1.00
145_L	149_T	0.907	1.00
202_R	205_G	0.905	1.00
22_E	100_Q	0.903	1.00
107_L	111_E	0.900	1.00
11_V	40_L	0.899	1.00
115_E	193_T	0.892	1.00
84_M	94_V	0.891	1.00
137_T	141_F	0.888	1.00
19_V	203_L	0.882	1.00
9_I	27_L	0.874	1.00
42_F	65_V	0.872	1.00
74_F	78_I	0.871	1.00
143_R	148_M	0.869	1.00
214_M	217_L	0.869	1.00
56_R	59_S	0.868	1.00
134_K	137_T	0.867	1.00
30_V	107_L	0.864	1.00
40_L	65_V	0.862	1.00
234_S	237_G	0.859	1.00
24_Y	65_V	0.842	1.00
26_R	29_E	0.840	1.00
58_H	62_D	0.836	1.00
87_A	92_I	0.836	1.00
90_N	166_K	0.833	1.00
136_Q	140_M	0.831	1.00
122_A	160_F	0.825	1.00
21_H	61_I	0.822	1.00
133_F	137_T	0.822	1.00
113_W	120_V	0.820	1.00
244_G	248_M	0.820	1.00
274_L	278_I	0.817	1.00
26_R	30_V	0.816	1.00
76_H	158_G	0.813	1.00
218_S	221_G	0.812	1.00
254_L	258_T	0.808	1.00
41_L	87_A	0.806	1.00
38_Y	106_I	0.803	1.00
6_Q	39_E	0.788	1.00
241_S	245_F	0.784	1.00
118_E	166_K	0.783	1.00
215_L	219_M	0.781	1.00
19_V	23_T	0.777	1.00
250_I	254_L	0.775	1.00
163_M	185_V	0.774	1.00
27_L	40_L	0.773	1.00
117_Y	191_K	0.770	1.00
13_V	20_I	0.768	1.00
26_R	200_D	0.768	1.00
253_Y	257_F	0.766	1.00
66_K	88_Q	0.766	1.00
11_V	42_F	0.761	1.00
8_S	165_R	0.760	1.00
283_L	286_I	0.760	1.00
15_N	49_D	0.759	1.00
123_V	194_A	0.758	1.00
20_I	51_S	0.758	1.00
71_S	82_A	0.756	1.00
23_T	26_R	0.752	1.00
109_M	198_V	0.748	1.00
23_T	97_A	0.739	1.00
99_L	202_R	0.739	1.00
163_M	168_C	0.736	1.00
47_S	51_S	0.730	1.00
12_P	79_A	0.728	1.00
11_V	95_I	0.724	1.00
80_I	96_D	0.724	1.00
20_I	55_L	0.723	1.00
56_R	67_I	0.720	1.00
14_Y	48_K	0.713	1.00
90_N	164_D	0.711	1.00
20_I	42_F	0.709	1.00
180_F	183_G	0.708	1.00
145_L	148_M	0.708	1.00
260_S	263_T	0.708	1.00
143_R	149_T	0.707	1.00
224_T	227_H	0.707	1.00
55_L	59_S	0.705	1.00
175_K	180_F	0.701	1.00
226_S	229_P	0.698	1.00
134_K	138_A	0.698	1.00
17_E	49_D	0.697	1.00
238_I	241_S	0.693	1.00
71_S	74_F	0.693	1.00
108_E	112_K	0.692	1.00
39_E	87_A	0.686	1.00
211_L	215_L	0.686	1.00
70_F	74_F	0.684	1.00
227_H	231_K	0.684	1.00
133_F	136_Q	0.681	1.00
144_L	149_T	0.680	1.00
167_V	170_E	0.680	1.00
121_Y	124_R	0.676	1.00
5_I	110_I	0.675	1.00
125_T	196_E	0.675	1.00
35_K	110_I	0.675	1.00
110_I	162_L	0.674	1.00
112_K	117_Y	0.674	1.00
217_L	220_D	0.673	1.00
235_Y	239_L	0.673	1.00
77_Q	177_K	0.668	1.00
136_Q	139_A	0.667	1.00
118_E	191_K	0.662	1.00
84_M	87_A	0.662	1.00
34_T	38_Y	0.657	1.00
89_G	165_R	0.657	1.00
17_E	53_E	0.652	1.00
30_V	34_T	0.649	1.00
30_V	106_I	0.647	1.00
171_M	185_V	0.646	1.00
146_S	150_D	0.644	1.00
115_E	191_K	0.643	1.00
14_Y	46_G	0.641	1.00
211_L	214_M	0.639	1.00
164_D	190_F	0.639	1.00
58_H	61_I	0.638	1.00
185_V	190_F	0.637	1.00
109_M	160_F	0.636	1.00
241_S	244_G	0.635	1.00
193_T	196_E	0.635	1.00
228_K	235_Y	0.631	1.00
77_Q	81_T	0.631	1.00
15_N	51_S	0.629	1.00
242_G	245_F	0.629	1.00
237_G	244_G	0.628	1.00
242_G	246_L	0.625	1.00
52_I	55_L	0.624	1.00
277_G	281_L	0.623	1.00
144_L	148_M	0.623	1.00
41_L	83_G	0.622	1.00
228_K	231_K	0.620	1.00
93_V	109_M	0.619	1.00
90_N	165_R	0.618	1.00
59_S	67_I	0.617	1.00
280_L	284_G	0.617	1.00
10_V	87_A	0.615	1.00
244_G	274_L	0.614	1.00
35_K	38_Y	0.613	1.00
212_K	215_L	0.612	1.00
268_L	271_I	0.612	1.00
5_I	90_N	0.609	1.00
213_K	220_D	0.607	1.00
99_L	200_D	0.606	1.00
218_S	222_I	0.606	1.00
105_L	109_M	0.606	1.00
273_L	277_G	0.606	1.00
108_E	195_V	0.605	1.00
266_S	269_I	0.601	1.00
94_V	161_R	0.600	1.00
247_Y	251_V	0.599	1.00
12_P	97_A	0.599	1.00
18_L	54_I	0.598	1.00
214_M	221_G	0.596	1.00
20_I	25_Q	0.595	1.00
273_L	280_L	0.595	1.00
226_S	231_K	0.595	1.00
37_N	64_R	0.594	1.00
109_M	113_W	0.591	1.00
237_G	240_M	0.589	1.00
107_L	110_I	0.588	1.00
249_F	253_Y	0.587	1.00
59_S	62_D	0.587	1.00
176_E	180_F	0.587	1.00
266_S	270_V	0.586	1.00
175_K	184_L	0.585	1.00
258_T	261_T	0.580	1.00
212_K	216_K	0.579	1.00
41_L	86_Y	0.579	1.00
224_T	228_K	0.578	1.00
259_D	263_T	0.577	1.00
205_G	208_K	0.577	1.00
15_N	44_N	0.576	1.00
14_Y	45_D	0.575	1.00
104_E	107_L	0.573	1.00
20_I	58_H	0.573	1.00
16_E	76_H	0.572	1.00
274_L	281_L	0.572	1.00
167_V	188_V	0.570	1.00
12_P	80_I	0.567	1.00
147_G	150_D	0.566	1.00
167_V	171_M	0.566	1.00
259_D	262_I	0.565	1.00
24_Y	40_L	0.565	1.00
121_Y	194_A	0.562	1.00
216_K	219_M	0.560	1.00
28_K	58_H	0.560	1.00
225_F	231_K	0.560	1.00
233_A	237_G	0.559	1.00
8_S	88_Q	0.558	1.00
16_E	51_S	0.558	1.00
17_E	21_H	0.556	1.00
135_K	139_A	0.555	1.00
145_L	150_D	0.555	1.00
267_S	270_V	0.555	1.00
51_S	97_A	0.554	1.00
75_G	98_D	0.552	1.00
12_P	45_D	0.552	1.00
158_G	161_R	0.551	1.00
27_L	101_D	0.550	1.00
186_S	192_Q	0.548	1.00
142_Y	146_S	0.548	1.00
20_I	97_A	0.543	1.00
59_S	63_P	0.543	1.00
28_K	65_V	0.543	1.00
118_E	167_V	0.542	1.00
277_G	280_L	0.540	1.00
120_V	195_V	0.540	1.00
106_I	162_L	0.539	1.00
225_F	228_K	0.539	1.00
62_D	65_V	0.538	1.00
101_D	160_F	0.537	1.00
263_T	266_S	0.537	1.00
216_K	220_D	0.537	1.00
139_A	143_R	0.535	1.00
121_Y	156_D	0.534	1.00
70_F	78_I	0.533	1.00
176_E	220_D	0.532	1.00
66_K	69_D	0.532	1.00
46_G	73_N	0.531	1.00
171_M	188_V	0.530	1.00
5_I	37_N	0.530	1.00
278_I	282_I	0.529	1.00
6_Q	36_E	0.528	1.00
274_L	277_G	0.528	1.00
233_A	282_I	0.526	1.00
244_G	247_Y	0.526	1.00
181_V	185_V	0.525	1.00
102_P	105_L	0.525	1.00
19_V	97_A	0.523	1.00
70_F	79_A	0.522	1.00
14_Y	44_N	0.519	1.00
176_E	182_R	0.519	1.00
245_F	249_F	0.519	1.00
138_A	141_F	0.519	1.00
102_P	199_R	0.519	1.00
132_F	137_T	0.517	1.00
214_M	218_S	0.517	1.00
272_Q	276_S	0.517	1.00
275_F	278_I	0.516	1.00
273_L	281_L	0.516	1.00
99_L	159_D	0.516	1.00
113_W	117_Y	0.515	1.00
273_L	276_S	0.515	1.00
51_S	55_L	0.514	1.00
264_G	267_S	0.512	1.00
76_H	79_A	0.511	1.00
147_G	151_I	0.510	1.00
16_E	20_I	0.509	1.00
46_G	70_F	0.508	1.00
271_I	275_F	0.507	1.00
238_I	245_F	0.505	1.00
279_V	283_L	0.505	1.00
236_A	240_M	0.504	1.00
270_V	274_L	0.503	1.00
36_E	114_K	0.502	1.00
84_M	173_R	0.502	1.00
26_R	99_L	0.501	1.00
163_M	181_V	0.501	1.00
109_M	120_V	0.501	1.00
70_F	73_N	0.501	1.00
140_M	143_R	0.500	1.00
131_T	138_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
4p02A	1	0.969	100	0.443	Contact Map
3bcvA	2	0.5294	100	0.455	Contact Map
2z86A	2	0.7554	100	0.459	Contact Map
2d7iA	1	0.9783	100	0.475	Contact Map
1qg8A	1	0.6656	100	0.485	Contact Map
3l7iA	4	0.0836	100	0.489	Contact Map
1xhbA	1	0.935	100	0.49	Contact Map
4fixA	3	0.9721	100	0.506	Contact Map
5ajoA	1	0.9443	100	0.507	Contact Map
2bo4A	4	0.8514	100	0.508	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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