YKWC - BACSU - GREMLIN Contacts

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YKWC - Uncharacterized oxidoreductase YkwC

UniProt:	O34948	Sequences: MKKTIGFIGLGVMGKSMASHILNDGHPVLVYTRTKEKAESILQKGAIWKDTVKDLSKEADVIITMVGYPSDVEEVYFGSNGIIENAKEGAYLIDMTTSKPSLAKKIAEAAKEKALFALDAPVSGGDIGAQNGTLAIMVGGEKEAFEACMPIFSLMGENIQYQGPAGSGQHTKMCNQIAIAAGMIGVAEAMAYAQKSGLEPENVLKSITTGAAGSWSLSNLAPRMLQGNFEPGFYVKHFIKDMGIALEEAELMGEEMPGLSLAKSLYDKLAAQGEENSGTQSIYKLWVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	288 (276)
Sequences:	11457 (7413)
Seq/√Len:	446.2

ECOLI - YGBJ GARR SQUU GLXR 6PGD
BACSU - YKWC YFJR YQEC 6PGDH 6PGD
HALSA - Q9HMG5
SULSO - Q97XZ7 Q97ZE5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
149_M	153_S	3.587	1.00
73_E	105_K	3.313	1.00
142_K	146_E	3.257	1.00
29_L	49_K	3.042	1.00
4_T	27_P	2.892	1.00
116_F	144_A	2.860	1.00
42_L	48_W	2.766	1.00
116_F	147_A	2.680	1.00
19_S	44_K	2.654	1.00
236_K	276_N	2.209	1.00
39_E	43_Q	2.206	1.00
50_D	54_D	2.202	1.00
146_E	149_M	2.153	1.00
110_A	115_L	2.138	1.00
38_A	48_W	2.137	1.00
91_Y	148_C	2.050	1.00
6_G	55_L	2.005	1.00
213_G	218_S	1.989	1.00
22_L	46_A	1.984	1.00
15_K	40_S	1.949	1.00
26_H	154_L	1.921	1.00
199_E	202_N	1.901	1.00
142_K	161_Y	1.879	1.00
83_I	110_A	1.868	1.00
51_T	54_D	1.862	1.00
107_A	165_A	1.839	1.00
64_T	92_L	1.834	1.00
116_F	141_E	1.813	1.00
101_S	251_L	1.798	1.00
248_E	251_L	1.778	1.00
4_T	29_L	1.771	1.00
27_P	47_I	1.771	1.00
20_H	23_N	1.750	1.00
34_T	37_K	1.735	1.00
24_D	154_L	1.702	1.00
87_K	90_A	1.696	1.00
36_E	39_E	1.669	1.00
111_K	141_E	1.649	1.00
76_Y	92_L	1.644	1.00
141_E	144_A	1.639	1.00
35_K	39_E	1.639	1.00
136_I	155_M	1.637	1.00
193_A	203_V	1.628	1.00
108_E	112_E	1.590	1.00
65_M	95_M	1.589	1.00
30_V	46_A	1.573	1.00
91_Y	144_A	1.572	1.00
236_K	270_A	1.571	1.00
109_A	112_E	1.569	1.00
118_L	140_G	1.558	1.00
136_I	156_G	1.540	1.00
274_E	277_S	1.533	1.00
86_A	90_A	1.520	1.00
107_A	111_K	1.520	1.00
105_K	109_A	1.485	1.00
120_A	136_I	1.483	1.00
118_L	148_C	1.462	1.00
145_F	149_M	1.461	1.00
55_L	59_A	1.454	1.00
145_F	161_Y	1.450	1.00
20_H	132_G	1.442	1.00
63_I	95_M	1.432	1.00
29_L	47_I	1.424	1.00
68_Y	71_D	1.414	1.00
222_P	226_Q	1.410	1.00
53_K	57_K	1.399	1.00
126_D	130_Q	1.397	1.00
39_E	42_L	1.393	1.00
201_E	205_K	1.390	1.00
127_I	131_N	1.380	1.00
69_P	102_L	1.368	1.00
181_A	185_G	1.366	1.00
53_K	85_N	1.363	1.00
35_K	50_D	1.361	1.00
173_M	244_I	1.348	1.00
260_S	264_S	1.347	1.00
29_L	58_E	1.332	1.00
263_K	267_D	1.331	1.00
162_Q	171_T	1.323	1.00
208_T	218_S	1.322	1.00
91_Y	147_A	1.306	1.00
23_N	44_K	1.299	1.00
194_Q	200_P	1.294	1.00
103_A	117_A	1.290	1.00
235_V	269_L	1.282	1.00
60_D	87_K	1.279	1.00
110_A	117_A	1.276	1.00
19_S	130_Q	1.262	1.00
133_T	157_E	1.258	1.00
58_E	87_K	1.256	1.00
261_L	264_S	1.247	1.00
118_L	145_F	1.245	1.00
93_I	148_C	1.242	1.00
70_S	74_E	1.240	1.00
16_S	130_Q	1.238	1.00
65_M	122_V	1.229	1.00
236_K	275_E	1.226	1.00
239_I	270_A	1.219	1.00
61_V	91_Y	1.217	1.00
6_G	59_A	1.217	1.00
81_G	84_E	1.213	1.00
83_I	113_K	1.204	1.00
52_V	85_N	1.203	1.00
250_E	260_S	1.201	1.00
23_N	130_Q	1.198	1.00
191_A	195_K	1.195	1.00
148_C	152_F	1.182	1.00
196_S	252_M	1.176	1.00
247_E	251_L	1.175	1.00
90_A	115_L	1.165	1.00
41_I	46_A	1.162	1.00
18_A	28_V	1.157	1.00
141_E	164_P	1.157	1.00
84_E	113_K	1.155	1.00
104_K	170_H	1.154	1.00
249_A	256_M	1.148	1.00
95_M	136_I	1.146	1.00
7_F	17_M	1.138	1.00
180_A	242_M	1.136	1.00
86_A	115_L	1.135	1.00
40_S	43_Q	1.128	1.00
109_A	113_K	1.123	1.00
73_E	109_A	1.119	1.00
99_K	102_L	1.117	1.00
7_F	63_I	1.109	1.00
56_S	85_N	1.109	1.00
66_V	75_V	1.107	1.00
104_K	165_A	1.102	1.00
19_S	23_N	1.101	1.00
4_T	60_D	1.101	1.00
7_F	18_A	1.100	1.00
61_V	151_I	1.094	1.00
49_K	55_L	1.093	1.00
255_E	260_S	1.088	1.00
264_S	267_D	1.082	1.00
180_A	238_F	1.079	1.00
161_Y	164_P	1.078	1.00
12_V	126_D	1.069	1.00
73_E	102_L	1.068	1.00
233_F	237_H	1.058	1.00
29_L	59_A	1.057	1.00
69_P	99_K	1.051	1.00
104_K	108_E	1.049	1.00
239_I	267_D	1.046	1.00
138_V	145_F	1.043	1.00
164_P	167_S	1.042	1.00
246_L	260_S	1.038	1.00
32_T	37_K	1.037	1.00
92_L	110_A	1.035	1.00
95_M	155_M	1.032	1.00
243_G	263_K	1.028	1.00
234_Y	237_H	1.027	1.00
63_I	151_I	1.005	1.00
108_E	111_K	1.002	1.00
107_A	141_E	1.001	1.00
22_L	45_G	0.997	1.00
178_A	189_A	0.994	1.00
202_N	205_K	0.991	1.00
80_N	84_E	0.966	1.00
247_E	250_E	0.966	1.00
80_N	109_A	0.963	1.00
118_L	138_V	0.962	1.00
40_S	44_K	0.959	1.00
86_A	92_L	0.953	1.00
49_K	54_D	0.953	1.00
53_K	81_G	0.951	1.00
119_D	166_G	0.949	1.00
174_C	193_A	0.948	1.00
35_K	48_W	0.948	1.00
63_I	93_I	0.943	1.00
235_V	270_A	0.943	1.00
267_D	271_A	0.936	1.00
190_M	204_L	0.934	1.00
153_S	159_I	0.930	1.00
72_V	98_S	0.926	1.00
174_C	189_A	0.921	1.00
208_T	217_L	0.918	1.00
129_A	134_L	0.918	1.00
71_D	74_E	0.905	1.00
99_K	247_E	0.902	1.00
140_G	145_F	0.902	1.00
76_Y	110_A	0.902	1.00
162_Q	167_S	0.901	1.00
33_R	71_D	0.900	1.00
10_L	41_I	0.900	1.00
243_G	247_E	0.899	1.00
181_A	258_G	0.898	1.00
220_L	223_R	0.898	1.00
88_E	114_A	0.897	1.00
76_Y	82_I	0.896	1.00
123_S	175_N	0.896	1.00
20_H	155_M	0.893	1.00
221_A	225_L	0.892	1.00
123_S	137_M	0.878	1.00
15_K	19_S	0.877	1.00
102_L	105_K	0.877	1.00
137_M	206_S	0.877	1.00
52_V	56_S	0.874	1.00
36_E	40_S	0.873	1.00
73_E	106_I	0.867	1.00
170_H	196_S	0.866	1.00
195_K	254_E	0.864	1.00
4_T	57_K	0.862	1.00
7_F	28_V	0.857	1.00
54_D	57_K	0.856	1.00
103_A	169_Q	0.855	1.00
170_H	248_E	0.854	1.00
215_W	219_N	0.851	1.00
61_V	147_A	0.850	1.00
146_E	161_Y	0.846	1.00
239_I	263_K	0.845	1.00
91_Y	116_F	0.843	1.00
243_G	267_D	0.843	1.00
10_L	30_V	0.833	1.00
270_A	275_E	0.830	1.00
269_L	281_S	0.828	1.00
98_S	102_L	0.822	1.00
17_M	155_M	0.820	1.00
37_K	40_S	0.818	1.00
221_A	224_M	0.817	1.00
5_I	26_H	0.816	1.00
144_A	147_A	0.816	1.00
105_K	108_E	0.815	1.00
21_I	63_I	0.814	1.00
62_I	82_I	0.814	1.00
93_I	120_A	0.814	1.00
277_S	281_S	0.810	1.00
171_T	198_L	0.809	1.00
204_L	208_T	0.804	1.00
182_G	214_S	0.804	1.00
150_P	153_S	0.803	1.00
208_T	213_G	0.801	1.00
184_I	258_G	0.795	1.00
119_D	168_G	0.795	1.00
258_G	262_A	0.794	1.00
162_Q	206_S	0.791	1.00
67_G	71_D	0.790	1.00
268_K	271_A	0.784	1.00
204_L	221_A	0.784	1.00
201_E	226_Q	0.783	1.00
142_K	164_P	0.781	1.00
29_L	55_L	0.780	1.00
182_G	186_V	0.778	1.00
64_T	72_V	0.777	1.00
177_I	259_L	0.772	1.00
187_A	282_I	0.770	1.00
101_S	104_K	0.769	1.00
230_E	277_S	0.767	1.00
220_L	224_M	0.765	1.00
139_G	168_G	0.758	1.00
144_A	148_C	0.756	1.00
30_V	38_A	0.751	1.00
17_M	134_L	0.744	1.00
268_K	272_Q	0.742	1.00
61_V	93_I	0.742	1.00
178_A	186_V	0.741	1.00
17_M	95_M	0.741	1.00
118_L	144_A	0.740	1.00
104_K	166_G	0.740	1.00
195_K	252_M	0.738	1.00
66_V	71_D	0.738	1.00
94_D	117_A	0.737	1.00
116_F	143_E	0.734	1.00
201_E	225_L	0.734	1.00
15_K	44_K	0.733	1.00
248_E	252_M	0.733	1.00
8_I	52_V	0.730	1.00
193_A	198_L	0.726	1.00
264_S	268_K	0.726	1.00
22_L	44_K	0.721	1.00
97_T	244_I	0.719	1.00
234_Y	276_N	0.719	1.00
125_G	128_G	0.718	1.00
5_I	21_I	0.714	1.00
177_I	245_A	0.713	1.00
33_R	37_K	0.711	1.00
26_H	151_I	0.706	1.00
7_F	65_M	0.705	1.00
21_I	28_V	0.703	1.00
8_I	31_Y	0.702	1.00
64_T	76_Y	0.700	1.00
52_V	55_L	0.698	1.00
145_F	159_I	0.696	1.00
106_I	117_A	0.694	1.00
160_Q	206_S	0.693	1.00
149_M	159_I	0.692	1.00
5_I	151_I	0.692	1.00
83_I	115_L	0.691	1.00
83_I	109_A	0.690	1.00
186_V	217_L	0.687	1.00
152_F	159_I	0.685	1.00
102_L	106_I	0.683	1.00
191_A	194_Q	0.682	1.00
17_M	65_M	0.679	1.00
117_A	165_A	0.678	1.00
38_A	42_L	0.674	1.00
4_T	58_E	0.670	1.00
250_E	263_K	0.663	1.00
53_K	56_S	0.663	1.00
234_Y	238_F	0.662	1.00
246_L	263_K	0.662	1.00
72_V	96_T	0.660	1.00
219_N	223_R	0.657	1.00
15_K	41_I	0.655	1.00
120_A	138_V	0.654	1.00
182_G	216_S	0.653	1.00
54_D	58_E	0.651	1.00
174_C	192_Y	0.650	1.00
35_K	38_A	0.648	1.00
178_A	185_G	0.647	0.99
158_N	209_T	0.647	0.99
235_V	281_S	0.643	0.99
22_L	28_V	0.638	0.99
171_T	203_V	0.633	0.99
198_L	203_V	0.631	0.99
143_E	146_E	0.629	0.99
138_V	152_F	0.628	0.99
88_E	113_K	0.628	0.99
66_V	72_V	0.628	0.99
215_W	218_S	0.627	0.99
178_A	182_G	0.627	0.99
74_E	81_G	0.625	0.99
62_I	86_A	0.625	0.99
99_K	244_I	0.624	0.99
173_M	245_A	0.622	0.99
183_M	279_T	0.622	0.99
158_N	205_K	0.618	0.99
192_Y	256_M	0.616	0.99
170_H	198_L	0.614	0.99
18_A	30_V	0.613	0.99
72_V	102_L	0.612	0.99
47_I	58_E	0.612	0.99
239_I	243_G	0.611	0.99
228_N	231_P	0.611	0.99
39_E	48_W	0.610	0.99
128_G	133_T	0.610	0.99
70_S	73_E	0.610	0.99
178_A	207_I	0.609	0.99
181_A	262_A	0.607	0.99
152_F	156_G	0.607	0.99
82_I	86_A	0.606	0.99
204_L	207_I	0.606	0.99
72_V	94_D	0.606	0.99
233_F	238_F	0.605	0.99
59_A	62_I	0.603	0.99
98_S	169_Q	0.602	0.99
223_R	228_N	0.601	0.99
32_T	35_K	0.601	0.99
53_K	84_E	0.600	0.99
98_S	103_A	0.599	0.99
74_E	80_N	0.595	0.99
187_A	224_M	0.594	0.99
243_G	250_E	0.594	0.99
138_V	159_I	0.593	0.99
149_M	161_Y	0.591	0.99
120_A	152_F	0.591	0.99
139_G	161_Y	0.591	0.99
19_S	22_L	0.590	0.99
57_K	85_N	0.590	0.99
269_L	274_E	0.586	0.99
75_V	81_G	0.581	0.99
10_L	18_A	0.581	0.99
55_L	58_E	0.580	0.99
13_M	17_M	0.580	0.99
246_L	250_E	0.579	0.99
255_E	271_A	0.578	0.99
53_K	80_N	0.577	0.99
16_S	126_D	0.577	0.99
62_I	90_A	0.575	0.99
32_T	71_D	0.574	0.99
204_L	225_L	0.573	0.99
142_K	145_F	0.572	0.99
11_G	67_G	0.571	0.99
64_T	94_D	0.570	0.99
103_A	165_A	0.570	0.99
128_G	131_N	0.568	0.99
207_I	212_A	0.565	0.99
61_V	148_C	0.565	0.99
191_A	254_E	0.562	0.99
200_P	225_L	0.555	0.98
19_S	40_S	0.551	0.98
8_I	55_L	0.550	0.98
100_P	170_H	0.549	0.98
72_V	106_I	0.547	0.98
93_I	152_F	0.544	0.98
162_Q	202_N	0.539	0.98
255_E	268_K	0.539	0.98
20_H	24_D	0.536	0.98
143_E	147_A	0.536	0.98
76_Y	106_I	0.536	0.98
150_P	154_L	0.535	0.98
48_W	52_V	0.535	0.98
151_I	154_L	0.535	0.98
87_K	115_L	0.534	0.98
38_A	41_I	0.532	0.98
177_I	192_Y	0.530	0.98
179_I	216_S	0.530	0.98
63_I	155_M	0.527	0.98
31_Y	52_V	0.525	0.98
4_T	59_A	0.524	0.98
258_G	261_L	0.521	0.98
101_S	105_K	0.521	0.98
60_D	90_A	0.520	0.98
33_R	74_E	0.517	0.98
142_K	149_M	0.516	0.98
233_F	236_K	0.514	0.97
63_I	152_F	0.512	0.97
160_Q	163_G	0.512	0.97
16_S	132_G	0.510	0.97
160_Q	209_T	0.509	0.97
157_E	209_T	0.508	0.97
147_A	150_P	0.504	0.97
167_S	170_H	0.502	0.97
94_D	103_A	0.500	0.97

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
1vpdA	1	0.9931	100	0.342	Contact Map
3pduA	4	0.9965	100	0.345	Contact Map
3ckyA	4	0.9965	100	0.346	Contact Map
3pefA	5	0.9965	100	0.348	Contact Map
3dojA	3	1	100	0.35	Contact Map
3g0oA	3	0.9826	100	0.353	Contact Map
3obbA	4	0.9931	100	0.356	Contact Map
2uyyA	3	1	100	0.356	Contact Map
4gbjA	2	0.9931	100	0.359	Contact Map
3ws7A	2	0.9757	100	0.364	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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