YUTF - BACSU - GREMLIN Contacts

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YUTF - Uncharacterized hydrolase YutF

UniProt:	O32125	Sequences: MKTYKGYLIDLDGTMYNGTEKIEEACEFVRTLKDRGVPYLFVTNNSSRTPKQVADKLVSFDIPATEEQVFTTSMATAQHIAQQKKDASVYVIGEEGIRQAIEENGLTFGGENADFVVVGIDRSITYEKFAVGCLAIRNGARFISTNGDIAIPTERGLLPGNGSLTSVLTVSTGVQPVFIGKPESIIMEQAMRVLGTDVSETLMVGDNYATDIMAGINAGMDTLLVHTGVTKREHMTDDMEKPTHAIDSLTEWIPYI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	256 (248)
Sequences:	4231 (2894)
Seq/√Len:	183.7

ECOLI - NAGD
BACSU - YUTF ARAL
HALSA - Q9HRF8 Q9HR34
SULSO - Q97W80

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
5_K	200_E	5.220	1.00
215_G	222_T	5.118	1.00
4_Y	221_D	4.045	1.00
33_K	68_Q	3.266	1.00
202_L	223_L	3.227	1.00
184_S	188_E	2.929	1.00
213_M	217_N	2.911	1.00
144_S	165_T	2.904	1.00
221_D	243_T	2.505	1.00
88_S	107_T	2.388	1.00
169_T	176_P	2.339	1.00
51_K	66_E	2.306	1.00
169_T	175_Q	2.278	1.00
31_T	35_R	2.245	1.00
6_G	194_L	2.214	1.00
116_V	119_G	2.117	1.00
248_S	251_E	2.103	1.00
31_T	34_D	1.984	1.00
212_I	222_T	1.942	1.00
196_T	201_T	1.923	1.00
247_D	251_E	1.858	1.00
142_F	176_P	1.856	1.00
30_R	34_D	1.802	1.00
55_D	59_S	1.777	1.00
6_G	196_T	1.755	1.00
91_V	101_I	1.748	1.00
191_M	201_T	1.696	1.00
21_K	26_C	1.695	1.00
226_H	247_D	1.661	1.00
231_K	234_H	1.651	1.00
149_I	170_V	1.649	1.00
18_G	154_E	1.635	1.00
203_M	220_M	1.628	1.00
51_K	55_D	1.626	1.00
17_N	20_E	1.624	1.00
9_I	204_V	1.612	1.00
40_L	193_V	1.589	1.00
76_T	143_I	1.565	1.00
8_L	42_V	1.553	1.00
216_I	243_T	1.544	1.00
166_S	169_T	1.544	1.00
230_T	234_H	1.528	1.00
187_M	214_A	1.514	1.00
76_T	117_V	1.503	1.00
125_T	128_K	1.498	1.00
11_L	41_F	1.488	1.00
226_H	245_A	1.473	1.00
230_T	235_M	1.450	1.00
121_D	128_K	1.442	1.00
11_L	16_Y	1.422	1.00
22_I	248_S	1.415	1.00
26_C	30_R	1.409	1.00
187_M	203_M	1.407	1.00
50_P	74_M	1.404	1.00
134_L	137_R	1.402	1.00
166_S	170_V	1.389	1.00
94_E	122_R	1.388	1.00
15_M	41_F	1.382	1.00
27_E	250_T	1.374	1.00
95_E	99_Q	1.370	1.00
143_I	179_I	1.361	1.00
183_E	217_N	1.355	1.00
54_A	66_E	1.349	1.00
5_K	37_V	1.344	1.00
197_D	200_E	1.339	1.00
188_E	198_V	1.337	1.00
136_I	168_L	1.333	1.00
223_L	246_I	1.328	1.00
7_Y	202_L	1.306	1.00
77_A	104_N	1.305	1.00
134_L	155_R	1.297	1.00
32_L	37_V	1.297	1.00
30_R	63_P	1.282	1.00
7_Y	37_V	1.274	1.00
189_Q	192_R	1.270	1.00
65_T	68_Q	1.261	1.00
89_V	106_L	1.259	1.00
54_A	58_V	1.246	1.00
52_Q	55_D	1.224	1.00
49_T	52_Q	1.219	1.00
151_I	160_G	1.209	1.00
226_H	230_T	1.196	1.00
213_M	240_E	1.196	1.00
48_R	56_K	1.187	1.00
9_I	28_F	1.185	1.00
4_Y	202_L	1.181	1.00
33_K	39_Y	1.178	1.00
50_P	100_A	1.170	1.00
15_M	29_V	1.169	1.00
232_R	236_T	1.163	1.00
47_S	120_I	1.162	1.00
51_K	99_Q	1.162	1.00
99_Q	102_E	1.160	1.00
27_E	30_R	1.158	1.00
55_D	58_V	1.147	1.00
75_A	186_I	1.143	1.00
26_C	62_I	1.142	1.00
11_L	14_T	1.142	1.00
226_H	232_R	1.141	1.00
54_A	69_V	1.127	1.00
84_K	87_A	1.125	1.00
153_T	158_L	1.120	1.00
7_Y	32_L	1.116	1.00
15_M	62_I	1.111	1.00
38_P	68_Q	1.104	1.00
232_R	247_D	1.101	1.00
8_L	190_A	1.100	1.00
73_S	77_A	1.100	1.00
136_I	172_T	1.099	1.00
46_S	72_T	1.098	1.00
25_A	62_I	1.098	1.00
58_V	66_E	1.095	1.00
78_Q	82_Q	1.095	1.00
141_R	177_V	1.088	1.00
24_E	27_E	1.088	1.00
118_V	165_T	1.078	1.00
190_A	194_L	1.067	1.00
129_F	167_V	1.063	1.00
207_N	210_T	1.054	1.00
41_F	64_A	1.049	1.00
115_F	141_R	1.047	1.00
6_G	38_P	1.044	1.00
134_L	158_L	1.037	1.00
187_M	220_M	1.033	1.00
235_M	242_P	1.031	1.00
81_A	106_L	1.025	1.00
92_I	132_G	1.019	1.00
207_N	229_V	1.019	1.00
70_F	190_A	1.011	0.99
224_L	230_T	0.996	0.99
40_L	194_L	0.994	0.99
70_F	189_Q	0.993	0.99
221_D	244_H	0.985	0.99
21_K	60_F	0.984	0.99
149_I	166_S	0.979	0.99
9_I	39_Y	0.974	0.99
39_Y	68_Q	0.974	0.99
90_Y	135_A	0.974	0.99
88_S	109_G	0.972	0.99
43_T	71_T	0.967	0.99
130_A	158_L	0.965	0.99
79_H	179_I	0.965	0.99
188_E	192_R	0.965	0.99
76_T	179_I	0.964	0.99
115_F	119_G	0.958	0.99
165_T	178_F	0.952	0.99
78_Q	189_Q	0.944	0.99
82_Q	192_R	0.943	0.99
42_V	203_M	0.939	0.99
120_I	124_I	0.937	0.99
9_I	249_L	0.936	0.99
130_A	134_L	0.934	0.99
216_I	222_T	0.933	0.99
53_V	69_V	0.933	0.99
136_I	139_G	0.931	0.99
22_I	25_A	0.928	0.99
6_G	201_T	0.926	0.99
177_V	185_I	0.926	0.99
147_G	178_F	0.923	0.99
19_T	59_S	0.919	0.99
132_G	168_L	0.906	0.99
131_V	135_A	0.904	0.99
149_I	209_A	0.904	0.99
79_H	143_I	0.897	0.99
235_M	245_A	0.896	0.99
58_V	63_P	0.894	0.99
130_A	159_P	0.894	0.99
33_K	63_P	0.893	0.99
76_T	145_T	0.883	0.99
53_V	71_T	0.878	0.99
133_C	171_S	0.877	0.99
202_L	221_D	0.872	0.98
58_V	64_A	0.871	0.98
56_K	60_F	0.869	0.98
224_L	245_A	0.866	0.98
83_Q	141_R	0.863	0.98
212_I	216_I	0.861	0.98
86_D	107_T	0.860	0.98
40_L	70_F	0.848	0.98
24_E	250_T	0.846	0.98
52_Q	99_Q	0.845	0.98
19_T	56_K	0.840	0.98
25_A	249_L	0.840	0.98
98_R	102_E	0.840	0.98
40_L	68_Q	0.839	0.98
148_D	210_T	0.837	0.98
42_V	186_I	0.834	0.98
144_S	178_F	0.833	0.98
20_E	154_E	0.833	0.98
95_E	98_R	0.832	0.98
16_Y	60_F	0.831	0.98
116_V	132_G	0.826	0.98
14_T	187_M	0.824	0.98
161_N	165_T	0.820	0.98
163_S	167_V	0.818	0.98
16_Y	41_F	0.814	0.98
115_F	118_V	0.805	0.97
77_A	81_A	0.804	0.97
70_F	193_V	0.804	0.97
209_A	229_V	0.803	0.97
24_E	248_S	0.803	0.97
102_E	108_F	0.802	0.97
191_M	198_V	0.801	0.97
101_I	117_V	0.801	0.97
232_R	235_M	0.798	0.97
14_T	120_I	0.797	0.97
98_R	110_G	0.794	0.97
15_M	249_L	0.794	0.97
77_A	100_A	0.792	0.97
144_S	161_N	0.790	0.97
4_Y	7_Y	0.788	0.97
4_Y	243_T	0.786	0.97
233_E	236_T	0.785	0.97
80_I	117_V	0.784	0.97
38_P	194_L	0.780	0.97
98_R	108_F	0.779	0.97
237_D	240_E	0.778	0.97
14_T	214_A	0.777	0.97
100_A	103_E	0.777	0.97
191_M	220_M	0.770	0.97
90_Y	132_G	0.770	0.97
52_Q	96_G	0.760	0.96
203_M	214_A	0.759	0.96
41_F	62_I	0.758	0.96
29_V	41_F	0.757	0.96
64_A	68_Q	0.756	0.96
80_I	106_L	0.752	0.96
73_S	76_T	0.751	0.96
74_M	100_A	0.749	0.96
163_S	170_V	0.749	0.96
242_P	245_A	0.743	0.96
127_E	131_V	0.734	0.96
189_Q	193_V	0.732	0.95
33_K	65_T	0.731	0.95
190_A	214_A	0.730	0.95
91_V	98_R	0.729	0.95
21_K	62_I	0.728	0.95
48_R	53_V	0.727	0.95
93_G	97_I	0.725	0.95
11_L	15_M	0.722	0.95
136_I	142_F	0.719	0.95
124_I	128_K	0.715	0.95
99_Q	103_E	0.713	0.95
9_I	15_M	0.713	0.95
72_T	145_T	0.713	0.95
72_T	146_N	0.710	0.95
17_N	22_I	0.708	0.95
150_A	157_L	0.707	0.95
56_K	59_S	0.703	0.94
124_I	129_F	0.698	0.94
142_F	174_V	0.697	0.94
238_D	241_K	0.697	0.94
109_G	113_A	0.697	0.94
28_F	39_Y	0.696	0.94
208_Y	238_D	0.694	0.94
222_T	243_T	0.687	0.94
124_I	164_L	0.682	0.93
81_A	104_N	0.680	0.93
17_N	154_E	0.680	0.93
75_A	189_Q	0.680	0.93
167_V	170_V	0.678	0.93
140_A	174_V	0.678	0.93
225_V	228_G	0.676	0.93
120_I	164_L	0.673	0.93
16_Y	57_L	0.669	0.93
79_H	177_V	0.664	0.92
216_I	240_E	0.658	0.92
129_F	133_C	0.658	0.92
26_C	61_D	0.655	0.92
96_G	100_A	0.654	0.92
132_G	136_I	0.654	0.92
136_I	174_V	0.653	0.92
78_Q	81_A	0.650	0.92
19_T	154_E	0.650	0.92
191_M	218_A	0.648	0.92
133_C	137_R	0.644	0.91
148_D	152_P	0.644	0.91
21_K	61_D	0.642	0.91
51_K	103_E	0.641	0.91
77_A	106_L	0.639	0.91
8_L	186_I	0.637	0.91
120_I	151_I	0.637	0.91
11_L	57_L	0.635	0.91
124_I	167_V	0.635	0.91
23_E	250_T	0.631	0.90
146_N	161_N	0.629	0.90
192_R	195_G	0.627	0.90
46_S	146_N	0.627	0.90
78_Q	104_N	0.626	0.90
163_S	171_S	0.626	0.90
8_L	201_T	0.625	0.90
139_G	174_V	0.621	0.90
202_L	244_H	0.621	0.90
196_T	200_E	0.619	0.90
33_K	41_F	0.614	0.89
187_M	215_G	0.613	0.89
78_Q	193_V	0.613	0.89
136_I	140_A	0.610	0.89
198_V	220_M	0.607	0.89
11_L	53_V	0.606	0.89
187_M	218_A	0.602	0.88
43_T	53_V	0.601	0.88
4_Y	223_L	0.601	0.88
150_A	207_N	0.599	0.88
32_L	36_G	0.597	0.88
143_I	177_V	0.597	0.88
147_G	165_T	0.593	0.88
224_L	227_T	0.585	0.87
89_V	117_V	0.584	0.87
10_D	13_G	0.582	0.87
25_A	248_S	0.580	0.86
6_G	40_L	0.579	0.86
73_S	97_I	0.578	0.86
203_M	215_G	0.578	0.86
174_V	177_V	0.575	0.86
118_V	144_S	0.570	0.85
27_E	31_T	0.570	0.85
208_Y	212_I	0.568	0.85
46_S	119_G	0.568	0.85
88_S	114_D	0.566	0.85
150_A	229_V	0.564	0.85
25_A	29_V	0.562	0.85
67_E	193_V	0.560	0.84
87_A	107_T	0.559	0.84
147_G	183_E	0.559	0.84
29_V	33_K	0.558	0.84
135_A	138_N	0.555	0.84
187_M	190_A	0.554	0.84
75_A	179_I	0.554	0.84
188_E	191_M	0.553	0.84
9_I	29_V	0.550	0.83
11_L	210_T	0.549	0.83
15_M	21_K	0.548	0.83
111_E	114_D	0.547	0.83
147_G	169_T	0.545	0.83
78_Q	192_R	0.544	0.83
8_L	220_M	0.544	0.83
185_I	188_E	0.543	0.83
113_A	135_A	0.543	0.83
75_A	78_Q	0.540	0.82
63_P	138_N	0.539	0.82
16_Y	56_K	0.539	0.82
14_T	151_I	0.538	0.82
208_Y	242_P	0.538	0.82
197_D	201_T	0.537	0.82
70_F	75_A	0.537	0.82
14_T	121_D	0.537	0.82
28_F	32_L	0.534	0.82
141_R	174_V	0.533	0.81
148_D	160_G	0.530	0.81
208_Y	216_I	0.526	0.81
40_L	190_A	0.525	0.81
167_V	171_S	0.524	0.80
198_V	218_A	0.522	0.80
97_I	145_T	0.521	0.80
48_R	52_Q	0.521	0.80
168_L	172_T	0.520	0.80
117_V	145_T	0.517	0.80
84_K	115_F	0.516	0.79
19_T	60_F	0.515	0.79
54_A	65_T	0.514	0.79
184_S	217_N	0.514	0.79
33_K	36_G	0.513	0.79
80_I	101_I	0.510	0.79
164_L	167_V	0.509	0.78
46_S	118_V	0.508	0.78
118_V	142_F	0.506	0.78
9_I	32_L	0.505	0.78
94_E	97_I	0.503	0.78
4_Y	244_H	0.502	0.78
214_A	218_A	0.501	0.77
83_Q	177_V	0.500	0.77

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
3kc2A	2	0.9648	100	0.36	Contact Map
2ho4A	1	0.9688	100	0.398	Contact Map
1zjjA	2	0.9805	100	0.43	Contact Map
4i9fA	2	0.9805	100	0.468	Contact Map
2oycA	2	1	100	0.474	Contact Map
3pdwA	1	0.9766	100	0.482	Contact Map
1vjrA	1	1	100	0.482	Contact Map
3eprA	3	0.9961	100	0.49	Contact Map
1yv9A	2	0.9961	100	0.509	Contact Map
2c4nA	3	0.9766	100	0.517	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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