YCCK - BACSU - GREMLIN Contacts

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YCCK - Uncharacterized oxidoreductase YccK

UniProt:	P46905	Sequences: MDQTRTLGKTKLKVKRIGFGANAVGGHNLFPNLNDETGKDLVRTALDGGVNFIDTAFIYGLGRSEELIGEVVQERGVRNELIIATKGAHKEVDGSIELDNSREFLRSEVEKSLKRLKTDYIDLYYVHFPDGKTPLAEVAGTLKELKDEGKIKAIGASNLDYQQLQDFNADGYLEVFQAEYSLIQRDAEKELLPYCEKQGISFIPYFPLASGLLTGKFTQDTVFDDFRKDKPQFQGETFIHNLKKVDKLKAVAEEKQADTAHVALAWLLTRPAIDAIIPGAKRPEQLQDNLKTLNIELTEDEVNFISDIFK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	310 (262)
Sequences:	32237 (20131)
Seq/√Len:	1243.7

ECOLI - YDJG YAJO TAS YDHF GPR YEAE YDBC DKGA DKGB
BACSU - YCCK IOLS GS69 YRPG YQKF YCSN YTBE GR
HALSA - Q9HPH9 Q9HNN3 Q9HQU7 Q9HSE6 Q9HS02 Q9HQT1
SULSO - Q97UG6 Q97UJ7 Q97UV9 Q97ZZ1 Q97V56 Q97U17

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
44_T	287_Q	3.119	1.00
110_E	150_K	3.038	1.00
35_D	70_E	2.961	1.00
73_Q	117_K	2.799	1.00
255_K	301_E	2.723	1.00
109_V	145_L	2.561	1.00
298_T	301_E	2.454	1.00
39_K	74_E	2.447	1.00
106_R	148_E	2.410	1.00
106_R	144_E	2.377	1.00
44_T	48_G	2.325	1.00
254_E	304_F	2.256	1.00
254_E	301_E	2.108	1.00
249_K	253_E	2.020	1.00
39_K	70_E	2.004	1.00
269_T	302_V	1.981	1.00
143_K	147_D	1.967	1.00
299_E	303_N	1.947	1.00
111_K	115_R	1.922	1.00
250_A	304_F	1.913	1.00
83_I	118_T	1.895	1.00
120_Y	152_K	1.884	1.00
194_Y	198_Q	1.878	1.00
144_E	148_E	1.868	1.00
125_Y	175_V	1.818	1.00
195_C	202_F	1.809	1.00
283_P	287_Q	1.802	1.00
85_T	121_I	1.798	1.00
165_Q	169_A	1.793	1.00
18_G	52_F	1.768	1.00
144_E	147_D	1.764	1.00
102_R	144_E	1.749	1.00
270_R	306_S	1.742	1.00
63_R	66_E	1.727	1.00
265_A	295_I	1.720	1.00
257_A	295_I	1.705	1.00
48_G	287_Q	1.674	1.00
66_E	115_R	1.666	1.00
44_T	283_P	1.655	1.00
201_S	275_A	1.649	1.00
34_N	37_T	1.644	1.00
39_K	71_V	1.643	1.00
85_T	112_S	1.643	1.00
48_G	290_L	1.643	1.00
258_D	288_D	1.632	1.00
102_R	106_R	1.615	1.00
247_K	250_A	1.613	1.00
87_G	105_L	1.602	1.00
109_V	124_Y	1.599	1.00
45_A	50_V	1.579	1.00
165_Q	194_Y	1.578	1.00
84_A	125_Y	1.568	1.00
87_G	124_Y	1.563	1.00
291_K	294_N	1.561	1.00
121_I	151_I	1.542	1.00
106_R	110_E	1.538	1.00
147_D	170_D	1.529	1.00
39_K	43_R	1.527	1.00
43_R	74_E	1.517	1.00
303_N	307_D	1.512	1.00
21_A	53_I	1.504	1.00
44_T	47_D	1.490	1.00
12_L	153_A	1.490	1.00
125_Y	203_I	1.480	1.00
141_T	144_E	1.479	1.00
143_K	171_G	1.464	1.00
190_E	193_P	1.463	1.00
57_F	108_E	1.456	1.00
46_L	81_L	1.435	1.00
37_T	40_D	1.411	1.00
43_R	75_R	1.406	1.00
107_S	111_K	1.405	1.00
257_A	261_H	1.394	1.00
110_E	114_K	1.381	1.00
193_P	197_K	1.368	1.00
287_Q	291_K	1.355	1.00
146_K	171_G	1.355	1.00
42_V	71_V	1.350	1.00
196_E	271_P	1.344	1.00
12_L	82_I	1.329	1.00
106_R	141_T	1.321	1.00
168_N	194_Y	1.320	1.00
43_R	47_D	1.317	1.00
160_D	163_Q	1.310	1.00
178_A	202_F	1.303	1.00
145_L	151_I	1.302	1.00
102_R	140_G	1.292	1.00
265_A	269_T	1.292	1.00
53_I	68_I	1.286	1.00
153_A	174_E	1.285	1.00
102_R	141_T	1.275	1.00
304_F	307_D	1.268	1.00
168_N	198_Q	1.260	1.00
35_D	39_K	1.256	1.00
109_V	121_I	1.250	1.00
111_K	114_K	1.250	1.00
151_I	154_I	1.248	1.00
257_A	262_V	1.245	1.00
165_Q	197_K	1.239	1.00
78_R	120_Y	1.235	1.00
280_A	285_Q	1.235	1.00
251_V	262_V	1.233	1.00
161_Y	194_Y	1.225	1.00
258_D	261_H	1.219	1.00
280_A	286_L	1.213	1.00
82_I	123_L	1.213	1.00
247_K	304_F	1.207	1.00
65_E	112_S	1.204	1.00
143_K	170_D	1.203	1.00
123_L	175_V	1.199	1.00
284_E	287_Q	1.195	1.00
78_R	118_T	1.195	1.00
182_L	305_I	1.186	1.00
40_D	44_T	1.180	1.00
250_A	254_E	1.163	1.00
70_E	117_K	1.161	1.00
36_E	40_D	1.157	1.00
69_G	117_K	1.149	1.00
183_I	245_V	1.138	1.00
116_L	121_I	1.136	1.00
192_L	196_E	1.132	1.00
41_L	286_L	1.132	1.00
10_T	153_A	1.129	1.00
146_K	174_E	1.126	1.00
129_P	163_Q	1.115	1.00
66_E	70_E	1.107	1.00
52_F	203_I	1.100	1.00
103_E	107_S	1.087	1.00
180_Y	270_R	1.079	1.00
137_E	140_G	1.071	1.00
248_L	259_T	1.071	1.00
267_L	276_I	1.070	1.00
142_L	154_I	1.070	1.00
104_F	107_S	1.065	1.00
66_E	114_K	1.057	1.00
286_L	290_L	1.056	1.00
246_D	250_A	1.054	1.00
110_E	148_E	1.050	1.00
165_Q	198_Q	1.048	1.00
43_R	71_V	1.046	1.00
249_K	259_T	1.044	1.00
179_E	184_Q	1.036	1.00
9_K	174_E	1.035	1.00
250_A	253_E	1.035	1.00
143_K	146_K	1.034	1.00
268_L	292_T	1.034	1.00
102_R	137_E	1.028	1.00
136_A	166_D	1.028	1.00
52_F	84_A	1.027	1.00
126_V	142_L	1.024	1.00
246_D	249_K	1.024	1.00
51_N	82_I	1.010	1.00
182_L	263_A	0.991	1.00
261_H	291_K	0.989	1.00
145_L	150_K	0.988	1.00
21_A	68_I	0.986	1.00
100_N	126_V	0.982	1.00
70_E	74_E	0.982	1.00
101_S	104_F	0.975	1.00
175_V	203_I	0.973	1.00
10_T	174_E	0.965	1.00
15_K	50_V	0.960	1.00
40_D	283_P	0.960	1.00
72_V	81_L	0.953	1.00
156_A	173_L	0.951	1.00
145_L	148_E	0.951	1.00
15_K	51_N	0.950	1.00
161_Y	165_Q	0.938	1.00
189_K	193_P	0.937	1.00
264_L	292_T	0.936	1.00
261_H	288_D	0.934	1.00
77_V	80_E	0.928	1.00
203_I	275_A	0.920	1.00
254_E	298_T	0.917	1.00
42_V	53_I	0.914	1.00
156_A	164_L	0.913	1.00
140_G	144_E	0.913	1.00
122_D	152_K	0.912	1.00
84_A	203_I	0.912	1.00
284_E	288_D	0.907	1.00
57_F	104_F	0.907	1.00
196_E	272_A	0.906	1.00
193_P	196_E	0.900	1.00
16_R	268_L	0.899	1.00
288_D	291_K	0.895	1.00
106_R	109_V	0.894	1.00
65_E	115_R	0.892	1.00
57_F	91_E	0.880	1.00
251_V	255_K	0.880	1.00
255_K	298_T	0.872	1.00
143_K	154_I	0.869	1.00
300_D	303_N	0.866	1.00
154_I	173_L	0.857	1.00
10_T	146_K	0.853	1.00
303_N	306_S	0.849	1.00
269_T	296_E	0.847	1.00
270_R	302_V	0.846	1.00
176_F	195_C	0.845	1.00
35_D	63_R	0.836	1.00
141_T	145_L	0.835	1.00
113_L	150_K	0.835	1.00
300_D	304_F	0.833	1.00
84_A	123_L	0.831	1.00
265_A	292_T	0.828	1.00
107_S	110_E	0.827	1.00
16_R	293_L	0.819	1.00
192_L	202_F	0.815	1.00
201_S	274_D	0.814	1.00
40_D	43_R	0.813	1.00
158_N	205_Y	0.809	1.00
282_R	285_Q	0.807	1.00
140_G	143_K	0.807	1.00
185_R	188_E	0.805	1.00
262_V	295_I	0.802	1.00
21_A	64_S	0.797	1.00
166_D	169_A	0.797	1.00
90_K	99_D	0.788	1.00
19_F	45_A	0.785	1.00
106_R	145_L	0.784	1.00
185_R	306_S	0.783	1.00
263_A	267_L	0.775	1.00
164_L	200_I	0.770	1.00
195_C	200_I	0.756	1.00
180_Y	192_L	0.754	1.00
194_Y	197_K	0.753	1.00
139_A	167_F	0.748	1.00
139_A	173_L	0.747	1.00
204_P	207_P	0.746	1.00
161_Y	191_L	0.743	1.00
42_V	46_L	0.742	1.00
269_T	299_E	0.741	1.00
218_T	249_K	0.741	1.00
18_G	278_P	0.738	1.00
156_A	176_F	0.737	1.00
257_A	294_N	0.736	1.00
128_F	158_N	0.736	1.00
207_P	278_P	0.733	1.00
36_E	39_K	0.727	1.00
85_T	124_Y	0.727	1.00
79_N	120_Y	0.726	1.00
168_N	172_Y	0.725	1.00
57_F	115_R	0.723	1.00
41_L	283_P	0.722	1.00
204_P	276_I	0.721	1.00
19_F	24_V	0.719	1.00
44_T	286_L	0.718	1.00
55_T	68_I	0.718	1.00
130_D	133_T	0.716	1.00
248_L	305_I	0.715	1.00
113_L	118_T	0.707	1.00
109_V	150_K	0.705	1.00
48_G	291_K	0.700	1.00
12_L	152_K	0.694	1.00
255_K	262_V	0.690	1.00
100_N	138_V	0.690	1.00
257_A	265_A	0.689	1.00
105_L	138_V	0.687	1.00
281_K	285_Q	0.686	1.00
266_W	306_S	0.685	1.00
191_L	195_C	0.685	1.00
146_K	153_A	0.682	1.00
297_L	302_V	0.681	1.00
139_A	154_I	0.678	1.00
46_L	53_I	0.678	1.00
38_G	67_L	0.676	1.00
262_V	297_L	0.676	1.00
57_F	111_K	0.673	1.00
156_A	159_L	0.669	1.00
51_N	80_E	0.669	1.00
48_G	286_L	0.668	1.00
251_V	301_E	0.668	1.00
105_L	145_L	0.667	1.00
285_Q	288_D	0.664	1.00
50_V	290_L	0.663	1.00
138_V	141_T	0.663	1.00
253_E	256_Q	0.662	1.00
17_I	268_L	0.662	1.00
108_E	111_K	0.660	1.00
248_L	263_A	0.657	1.00
257_A	291_K	0.654	1.00
251_V	304_F	0.653	1.00
192_L	270_R	0.652	1.00
161_Y	190_E	0.652	1.00
109_V	113_L	0.650	1.00
243_K	246_D	0.646	1.00
185_R	189_K	0.646	1.00
219_Q	246_D	0.645	1.00
112_S	124_Y	0.644	1.00
22_N	206_F	0.638	1.00
142_L	146_K	0.638	1.00
134_P	137_E	0.631	1.00
105_L	141_T	0.629	1.00
252_A	262_V	0.629	1.00
87_G	100_N	0.626	1.00
41_L	280_A	0.625	1.00
14_V	52_F	0.625	1.00
267_L	272_A	0.619	1.00
37_T	283_P	0.618	1.00
247_K	308_I	0.617	1.00
165_Q	168_N	0.616	1.00
252_A	259_T	0.616	1.00
260_A	288_D	0.615	1.00
23_A	210_S	0.615	1.00
113_L	119_D	0.612	1.00
242_L	246_D	0.612	1.00
297_L	301_E	0.609	1.00
113_L	121_I	0.608	1.00
135_L	138_V	0.607	1.00
125_Y	155_G	0.607	1.00
14_V	275_A	0.606	1.00
58_I	88_A	0.604	1.00
163_Q	166_D	0.602	1.00
207_P	267_L	0.602	1.00
101_S	138_V	0.601	1.00
180_Y	267_L	0.599	1.00
245_V	249_K	0.598	1.00
146_K	151_I	0.598	1.00
106_R	150_K	0.597	1.00
121_I	124_Y	0.592	1.00
192_L	272_A	0.592	1.00
180_Y	202_F	0.590	1.00
182_L	266_W	0.590	1.00
24_V	41_L	0.586	1.00
262_V	301_E	0.583	1.00
215_G	218_T	0.577	1.00
180_Y	185_R	0.574	1.00
140_G	170_D	0.573	1.00
167_F	173_L	0.573	1.00
251_V	308_I	0.570	1.00
46_L	51_N	0.569	1.00
9_K	172_Y	0.569	1.00
53_I	72_V	0.567	1.00
65_E	85_T	0.560	1.00
188_E	193_P	0.560	1.00
218_T	246_D	0.560	1.00
47_D	283_P	0.560	1.00
26_G	67_L	0.559	1.00
156_A	167_F	0.558	1.00
283_P	286_L	0.556	1.00
251_V	254_E	0.555	1.00
42_V	68_I	0.554	1.00
126_V	138_V	0.554	1.00
87_G	108_E	0.554	1.00
113_L	120_Y	0.554	1.00
124_Y	151_I	0.553	1.00
183_I	212_L	0.553	1.00
162_Q	165_Q	0.552	1.00
301_E	304_F	0.552	1.00
252_A	255_K	0.552	1.00
255_K	295_I	0.551	1.00
212_L	245_V	0.546	1.00
17_I	293_L	0.546	1.00
18_G	277_I	0.545	1.00
46_L	77_V	0.544	1.00
52_F	82_I	0.544	1.00
136_A	140_G	0.544	1.00
68_I	71_V	0.543	1.00
8_G	201_S	0.543	1.00
243_K	247_K	0.542	1.00
78_R	122_D	0.542	1.00
18_G	275_A	0.540	1.00
46_L	75_R	0.540	1.00
57_F	88_A	0.539	1.00
109_V	141_T	0.538	1.00
124_Y	142_L	0.537	1.00
63_R	67_L	0.536	1.00
25_G	64_S	0.536	1.00
8_G	14_V	0.534	1.00
24_V	38_G	0.534	1.00
265_A	296_E	0.533	1.00
19_F	41_L	0.533	1.00
164_L	195_C	0.529	1.00
248_L	252_A	0.528	1.00
268_L	276_I	0.528	1.00
242_L	245_V	0.528	1.00
55_T	64_S	0.528	1.00
292_T	295_I	0.527	1.00
265_A	293_L	0.525	1.00
41_L	281_K	0.524	1.00
91_E	104_F	0.524	1.00
54_D	177_Q	0.522	1.00
261_H	295_I	0.518	1.00
168_N	200_I	0.517	1.00
99_D	104_F	0.516	1.00
89_H	100_N	0.514	1.00
35_D	67_L	0.514	1.00
178_A	191_L	0.508	1.00
194_Y	200_I	0.506	1.00
112_S	115_R	0.505	1.00
46_L	71_V	0.505	1.00
262_V	305_I	0.505	1.00
180_Y	272_A	0.502	1.00
206_F	210_S	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
1pyfA	1	0.9903	100	0.079	Contact Map
1pz1A	1	0.9935	100	0.083	Contact Map
3n2tA	1	0.9871	100	0.095	Contact Map
4xk2A	5	0.9226	100	0.099	Contact Map
3v0sA	1	0.871	100	0.102	Contact Map
3eauA	3	0.9774	100	0.114	Contact Map
3erpA	6	0.929	100	0.115	Contact Map
1lqaA	2	0.9806	100	0.116	Contact Map
3lutA	3	0.9742	100	0.117	Contact Map
3n6qA	5	0.929	100	0.123	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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