YESF - BACSU - GREMLIN Contacts

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YESF - Uncharacterized oxidoreductase YesF

UniProt:	O31512	Sequences: MMKQNPILITGGTGTVGSRIASRLIKLGYRVRIASRKKGALADAEYVYFNWKYASSFTPALEQVKQIYLVAPVGVFDPAPYVLPFLKEAKRLGAKRVVMQSASVVSENGPVFGALHQAVREFPEWTVLRPSYFMQNFINVQHRMSIQTEGRITTASGEGKLGFIDADDIAETAVRALIDDVPHQTHHILTGPEALSYAEAAEIIGAAAGRRVEHVSISRSELQHKMEAGGLPADYAHFMAKLDEAISHGAEHRVTDTVKRVTGKEPRSLSEFAAAHAAYWTSFWTE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	286 (247)
Sequences:	49667 (36749)
Seq/√Len:	2338.3

ECOLI - QOR2 GM4D RMLB2 YBJS GALE RMLB1 HLDD YFCH FCL YBJT RMLD YEEZ YRAR
BACSU - YESF YFNG RMLB GALE YTCB YFHF SPSK YTBQ YHFK YWNB YHEG
HALSA - Q9HML4 Q9HSU9 Q9HSV1 Q9HRD1 Q9HS50 Q9HNV3 Q9HSE7 Q9HSQ3 Q9HR86 Q9HPF1
SULSO - Q980W1 Q97VN5 Q97UM3 Q97XG1 Q7LXE8 Q97XJ9 Q7LXG5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
203_I	270_S	2.964	1.00
12_G	33_I	2.906	1.00
112_F	116_H	2.833	1.00
6_P	30_R	2.648	1.00
34_A	49_F	2.408	1.00
58_T	91_R	2.352	1.00
23_R	171_E	2.341	1.00
268_S	271_E	2.263	1.00
187_H	261_V	2.263	1.00
185_T	257_T	2.250	1.00
23_R	27_L	2.179	1.00
53_Y	56_S	2.172	1.00
172_T	189_L	2.140	1.00
206_A	270_S	2.139	1.00
259_K	265_E	2.131	1.00
49_F	56_S	2.127	1.00
66_Q	177_L	2.095	1.00
54_A	87_K	2.067	1.00
23_R	174_V	2.056	1.00
32_R	47_V	2.055	1.00
6_P	32_R	2.026	1.00
8_L	64_V	1.975	1.00
207_A	274_A	1.936	1.00
256_D	260_R	1.906	1.00
74_G	78_P	1.901	1.00
32_R	64_V	1.878	1.00
198_A	202_E	1.846	1.00
128_L	176_A	1.834	1.00
32_R	45_E	1.824	1.00
113_G	117_Q	1.818	1.00
167_D	275_A	1.815	1.00
58_T	88_E	1.799	1.00
96_R	124_E	1.797	1.00
65_K	95_K	1.795	1.00
130_P	173_A	1.752	1.00
196_S	199_E	1.674	1.00
83_L	118_A	1.667	1.00
165_D	275_A	1.636	1.00
68_Y	177_L	1.619	1.00
203_I	206_A	1.617	1.00
171_E	175_R	1.612	1.00
54_A	58_T	1.612	1.00
56_S	59_P	1.597	1.00
30_R	45_E	1.590	1.00
192_P	259_K	1.565	1.00
54_A	84_P	1.557	1.00
134_M	272_F	1.555	1.00
83_L	87_K	1.547	1.00
7_I	66_Q	1.540	1.00
9_I	21_A	1.530	1.00
27_L	174_V	1.523	1.00
20_I	70_V	1.519	1.00
100_Q	173_A	1.518	1.00
37_K	46_Y	1.500	1.00
267_R	275_A	1.482	1.00
7_I	29_Y	1.465	1.00
21_A	33_I	1.462	1.00
20_I	68_Y	1.461	1.00
10_T	69_L	1.444	1.00
23_R	26_K	1.420	1.00
69_L	99_M	1.411	1.00
258_V	262_T	1.394	1.00
205_G	211_R	1.380	1.00
27_L	178_I	1.371	1.00
58_T	92_L	1.370	1.00
174_V	178_I	1.368	1.00
141_Q	144_M	1.366	1.00
255_T	259_K	1.364	1.00
22_S	137_F	1.361	1.00
220_S	223_Q	1.358	1.00
6_P	65_K	1.358	1.00
33_I	44_A	1.356	1.00
119_V	125_W	1.345	1.00
160_K	194_A	1.335	1.00
175_R	179_D	1.325	1.00
20_I	170_A	1.317	1.00
203_I	207_A	1.317	1.00
66_Q	96_R	1.314	1.00
51_W	81_Y	1.306	1.00
131_S	253_R	1.305	1.00
80_P	83_L	1.289	1.00
271_E	275_A	1.277	1.00
185_T	261_V	1.271	1.00
96_R	126_T	1.260	1.00
87_K	90_K	1.257	1.00
271_E	274_A	1.254	1.00
34_A	60_A	1.244	1.00
144_M	148_T	1.238	1.00
100_Q	130_P	1.226	1.00
107_E	111_V	1.212	1.00
267_R	271_E	1.209	1.00
112_F	118_A	1.207	1.00
158_E	196_S	1.203	1.00
16_V	133_F	1.194	1.00
70_V	100_Q	1.187	1.00
199_E	202_E	1.185	1.00
8_L	34_A	1.182	1.00
7_I	24_L	1.170	1.00
67_I	89_A	1.169	1.00
222_L	225_K	1.166	1.00
12_G	21_A	1.165	1.00
257_T	261_V	1.164	1.00
82_V	115_L	1.160	1.00
25_I	44_A	1.144	1.00
29_Y	178_I	1.137	1.00
62_E	92_L	1.129	1.00
37_K	40_A	1.128	1.00
89_A	97_V	1.125	1.00
58_T	62_E	1.125	1.00
57_F	88_E	1.112	1.00
270_S	274_A	1.111	1.00
101_S	105_V	1.108	1.00
141_Q	145_S	1.102	1.00
99_M	115_L	1.102	1.00
99_M	127_V	1.090	1.00
158_E	198_A	1.084	1.00
195_L	269_L	1.084	1.00
23_R	170_A	1.073	1.00
34_A	56_S	1.073	1.00
198_A	216_S	1.070	1.00
23_R	167_D	1.066	1.00
145_S	150_G	1.060	1.00
223_Q	226_M	1.059	1.00
207_A	277_A	1.058	1.00
165_D	267_R	1.058	1.00
165_D	272_F	1.057	1.00
80_P	84_P	1.048	1.00
194_A	250_A	1.043	1.00
25_I	43_D	1.038	1.00
190_T	253_R	1.034	1.00
61_L	88_E	1.030	1.00
35_S	46_Y	1.027	1.00
208_A	277_A	1.013	1.00
218_S	221_E	1.011	1.00
144_M	147_Q	1.009	1.00
167_D	267_R	1.005	1.00
34_A	57_F	1.000	1.00
106_S	188_I	0.994	1.00
87_K	91_R	0.993	1.00
86_L	97_V	0.992	1.00
56_S	60_A	0.989	1.00
51_W	71_A	0.986	1.00
22_S	26_K	0.985	1.00
85_F	97_V	0.983	1.00
219_R	222_L	0.980	1.00
88_E	91_R	0.979	1.00
54_A	91_R	0.974	1.00
47_V	60_A	0.972	1.00
13_T	35_S	0.970	1.00
59_P	62_E	0.961	1.00
61_L	64_V	0.957	1.00
130_P	169_I	0.956	1.00
255_T	266_P	0.954	1.00
84_P	87_K	0.951	1.00
128_L	173_A	0.949	1.00
36_R	50_N	0.949	1.00
89_A	94_A	0.944	1.00
129_R	186_H	0.943	1.00
54_A	88_E	0.942	1.00
57_F	84_P	0.931	1.00
222_L	226_M	0.930	1.00
256_D	259_K	0.929	1.00
202_E	205_G	0.926	1.00
69_L	82_V	0.925	1.00
114_A	118_A	0.921	1.00
113_G	116_H	0.917	1.00
61_L	67_I	0.917	1.00
55_S	58_T	0.913	1.00
55_S	59_P	0.912	1.00
90_K	123_P	0.907	1.00
61_L	89_A	0.907	1.00
30_R	43_D	0.903	1.00
20_I	100_Q	0.894	1.00
175_R	178_I	0.887	1.00
107_E	110_P	0.887	1.00
223_Q	227_E	0.879	1.00
171_E	267_R	0.876	1.00
6_P	64_V	0.876	1.00
108_N	111_V	0.875	1.00
98_V	128_L	0.874	1.00
67_I	97_V	0.871	1.00
218_S	222_L	0.870	1.00
207_A	270_S	0.868	1.00
99_M	119_V	0.866	1.00
38_K	48_Y	0.865	1.00
194_A	252_H	0.855	1.00
207_A	273_A	0.854	1.00
153_T	215_V	0.854	1.00
18_S	137_F	0.851	1.00
124_E	183_H	0.846	1.00
21_A	31_V	0.843	1.00
88_E	92_L	0.842	1.00
37_K	48_Y	0.838	1.00
10_T	85_F	0.836	1.00
205_G	212_V	0.835	1.00
114_A	117_Q	0.835	1.00
82_V	119_V	0.834	1.00
103_S	131_S	0.831	1.00
68_Y	173_A	0.827	1.00
136_N	275_A	0.824	1.00
79_A	114_A	0.819	1.00
257_T	260_R	0.817	1.00
61_L	92_L	0.816	1.00
195_L	199_E	0.816	1.00
86_L	122_F	0.816	1.00
19_R	22_S	0.814	1.00
205_G	210_R	0.813	1.00
6_P	29_Y	0.813	1.00
130_P	133_F	0.799	1.00
193_E	268_S	0.798	1.00
224_H	227_E	0.797	1.00
69_L	85_F	0.793	1.00
133_F	169_I	0.791	1.00
97_V	119_V	0.790	1.00
220_S	225_K	0.787	1.00
164_I	169_I	0.784	1.00
199_E	203_I	0.778	1.00
151_R	213_E	0.777	1.00
25_I	31_V	0.772	1.00
70_V	173_A	0.771	1.00
19_R	23_R	0.770	1.00
86_L	119_V	0.768	1.00
160_K	250_A	0.759	1.00
67_I	85_F	0.759	1.00
170_A	174_V	0.756	1.00
19_R	167_D	0.754	1.00
166_A	170_A	0.752	1.00
116_H	119_V	0.750	1.00
126_T	176_A	0.746	1.00
24_L	174_V	0.745	1.00
95_K	124_E	0.744	1.00
84_P	88_E	0.744	1.00
171_E	174_V	0.742	1.00
52_K	81_Y	0.739	1.00
125_W	184_Q	0.738	1.00
222_L	227_E	0.738	1.00
267_R	272_F	0.736	1.00
205_G	208_A	0.734	1.00
20_I	24_L	0.734	1.00
32_R	63_Q	0.732	1.00
187_H	257_T	0.731	1.00
162_G	192_P	0.730	1.00
151_R	215_V	0.724	1.00
218_S	223_Q	0.720	1.00
7_I	68_Y	0.720	1.00
83_L	86_L	0.715	1.00
15_T	166_A	0.708	1.00
117_Q	120_R	0.707	1.00
112_F	115_L	0.707	1.00
129_R	188_I	0.702	1.00
105_V	129_R	0.696	1.00
142_H	146_I	0.691	1.00
61_L	85_F	0.689	1.00
220_S	224_H	0.688	1.00
101_S	129_R	0.683	1.00
103_S	253_R	0.681	1.00
160_K	196_S	0.676	1.00
205_G	214_H	0.676	1.00
115_L	119_V	0.675	1.00
15_T	19_R	0.669	1.00
195_L	200_A	0.663	1.00
200_A	269_L	0.663	1.00
202_E	206_A	0.662	1.00
221_E	224_H	0.661	1.00
24_L	28_G	0.660	1.00
25_I	42_A	0.660	1.00
127_V	186_H	0.658	1.00
221_E	225_K	0.656	1.00
176_A	258_V	0.656	1.00
90_K	122_F	0.655	1.00
201_A	205_G	0.654	1.00
221_E	226_M	0.654	1.00
143_R	147_Q	0.653	1.00
171_E	264_K	0.652	1.00
190_T	255_T	0.650	1.00
259_K	266_P	0.650	1.00
213_E	216_S	0.647	1.00
8_L	61_L	0.646	1.00
86_L	90_K	0.643	1.00
258_V	264_K	0.640	1.00
86_L	118_A	0.633	1.00
142_H	145_S	0.631	1.00
49_F	60_A	0.630	1.00
82_V	86_L	0.629	1.00
192_P	255_T	0.629	1.00
116_H	129_R	0.625	1.00
127_V	184_Q	0.622	1.00
255_T	264_K	0.622	1.00
134_M	165_D	0.618	1.00
66_Q	95_K	0.615	1.00
120_R	127_V	0.614	1.00
18_S	22_S	0.612	1.00
143_R	277_A	0.612	1.00
89_A	92_L	0.611	1.00
172_T	258_V	0.611	1.00
218_S	224_H	0.604	1.00
120_R	186_H	0.602	1.00
51_W	57_F	0.602	1.00
182_P	261_V	0.599	1.00
21_A	44_A	0.599	1.00
168_D	171_E	0.598	1.00
112_F	117_Q	0.597	1.00
66_Q	98_V	0.596	1.00
179_D	182_P	0.596	1.00
7_I	177_L	0.595	1.00
28_G	43_D	0.594	1.00
220_S	226_M	0.592	1.00
174_V	177_L	0.591	1.00
33_I	46_Y	0.588	1.00
10_T	71_A	0.586	1.00
189_L	258_V	0.582	1.00
172_T	264_K	0.581	1.00
29_Y	65_K	0.581	1.00
9_I	24_L	0.580	1.00
219_R	224_H	0.577	1.00
149_E	210_R	0.577	1.00
115_L	118_A	0.577	1.00
216_S	219_R	0.575	1.00
128_L	189_L	0.575	1.00
117_Q	121_E	0.574	1.00
53_Y	57_F	0.573	1.00
6_P	63_Q	0.567	1.00
160_K	252_H	0.567	1.00
175_R	263_G	0.565	1.00
57_F	61_L	0.562	1.00
29_Y	66_Q	0.562	1.00
203_I	269_L	0.560	1.00
13_T	37_K	0.557	1.00
186_H	189_L	0.557	1.00
16_V	100_Q	0.557	1.00
15_T	135_Q	0.552	1.00
170_A	173_A	0.548	1.00
255_T	258_V	0.543	1.00
106_S	129_R	0.539	1.00
195_L	203_I	0.536	1.00
168_D	191_G	0.534	1.00
118_A	121_E	0.534	1.00
12_G	44_A	0.533	1.00
20_I	173_A	0.533	1.00
193_E	270_S	0.533	1.00
219_R	223_Q	0.532	1.00
86_L	123_P	0.528	1.00
98_V	177_L	0.527	1.00
82_V	99_M	0.525	1.00
151_R	154_T	0.525	1.00
112_F	119_V	0.524	1.00
49_F	57_F	0.521	1.00
148_T	151_R	0.521	1.00
180_D	183_H	0.520	1.00
172_T	175_R	0.519	1.00
175_R	264_K	0.519	1.00
86_L	89_A	0.518	1.00
89_A	123_P	0.518	1.00
24_L	29_Y	0.515	1.00
184_Q	224_H	0.515	1.00
120_R	125_W	0.514	1.00
216_S	220_S	0.509	1.00
37_K	41_L	0.508	1.00
215_V	218_S	0.508	1.00
176_A	262_T	0.508	1.00
167_D	171_E	0.508	1.00
169_I	172_T	0.507	1.00
119_V	127_V	0.507	1.00
36_R	52_K	0.507	1.00
218_S	225_K	0.506	1.00
67_I	94_A	0.506	1.00
24_L	68_Y	0.505	1.00
150_G	153_T	0.505	1.00
175_R	262_T	0.502	1.00
199_E	270_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
1rkxA	3	0.9021	100	0.316	Contact Map
3rufA	2	0.9126	100	0.318	Contact Map
1sb8A	2	0.9301	100	0.321	Contact Map
3m2pA	2	0.8951	100	0.323	Contact Map
3slgA	4	0.9161	100	0.327	Contact Map
2pzmA	2	0.9056	100	0.327	Contact Map
1orrA	3	0.8916	100	0.327	Contact Map
4wkgA	5	0.9615	100	0.329	Contact Map
4wokA	1	0.9021	100	0.329	Contact Map
3enkA	2	0.9161	100	0.33	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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