YFNB - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YFNB - Putative HAD-hydrolase YfnB

UniProt:	O06480	Sequences: MKRYRTLLFDVDDTILDFQAAEALALRLLFEDQNIPLTNDMKAQYKTINQGLWRAFEEGKMTRDEVVNTRFSALLKEYGYEADGALLEQKYRRFLEEGHQLIDGAFDLISNLQQQFDLYIVTNGVSHTQYKRLRDSGLFPFFKDIFVSEDTGFQKPMKEYFNYVFERIPQFSAEHTLIIGDSLTADIKGGQLAGLDTCWMNPDMKPNVPEIIPTYEIRKLEELYHILNIENTVSC	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	235 (201)
Sequences:	28983 (22878)
Seq/√Len:	1613.7

ECOLI - YIEH YIGB GPH YJJG YNIC YRFG YFBT YQAB PGMB YIHX
BACSU - YFNB YSAA YHCW PPAX PGMB
HALSA - Q9HQE2 Q9HSS2 Q9HP74 Q9HMC4
SULSO - Q7LXL6 Q7LX46 Q97ZU6 Q97YZ1 Q97WT6 Q97X58

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_R	175_H	4.216	1.00
134_R	139_F	2.863	1.00
163_Y	167_R	2.858	1.00
153_F	157_M	2.787	1.00
180_G	186_D	2.605	1.00
190_G	197_T	2.557	1.00
126_S	130_Y	2.438	1.00
110_S	141_F	2.370	1.00
106_F	110_S	2.328	1.00
6_T	171_F	2.318	1.00
4_Y	196_D	2.313	1.00
117_D	143_K	2.259	1.00
122_T	129_Q	2.246	1.00
163_Y	166_E	2.215	1.00
126_S	150_D	2.198	1.00
119_Y	144_D	2.170	1.00
191_Q	214_T	2.116	1.00
165_F	176_T	2.106	1.00
218_R	222_E	2.041	1.00
121_V	160_Y	2.034	1.00
153_F	159_E	2.006	1.00
9_F	118_L	1.939	1.00
144_D	167_R	1.929	1.00
172_S	175_H	1.885	1.00
187_I	197_T	1.877	1.00
188_K	192_L	1.816	1.00
7_L	116_F	1.759	1.00
196_D	214_T	1.722	1.00
113_Q	143_K	1.691	1.00
165_F	195_L	1.664	1.00
113_Q	141_F	1.660	1.00
8_L	178_I	1.645	1.00
177_L	198_C	1.613	1.00
111_N	224_Y	1.599	1.00
111_N	115_Q	1.585	1.00
105_A	220_L	1.582	1.00
118_L	142_F	1.572	1.00
178_I	190_G	1.570	1.00
32_D	90_K	1.553	1.00
4_Y	177_L	1.544	1.00
8_L	121_V	1.498	1.00
171_F	176_T	1.485	1.00
201_N	218_R	1.478	1.00
165_F	173_A	1.471	1.00
6_T	168_I	1.464	1.00
8_L	164_V	1.461	1.00
7_L	112_L	1.390	1.00
7_L	179_I	1.387	1.00
198_C	217_I	1.354	1.00
102_I	202_P	1.352	1.00
130_Y	139_F	1.343	1.00
108_L	220_L	1.342	1.00
219_K	222_E	1.337	1.00
119_Y	168_I	1.327	1.00
111_N	114_Q	1.325	1.00
46_K	49_N	1.323	1.00
86_L	90_K	1.315	1.00
32_D	86_L	1.313	1.00
91_Y	95_L	1.284	1.00
108_L	224_Y	1.284	1.00
28_L	32_D	1.252	1.00
90_K	93_R	1.251	1.00
11_V	16_L	1.248	1.00
130_Y	134_R	1.235	1.00
201_N	216_E	1.233	1.00
14_T	179_I	1.227	1.00
198_C	215_Y	1.226	1.00
90_K	94_F	1.213	1.00
104_G	107_D	1.202	1.00
15_I	105_A	1.198	1.00
158_K	162_N	1.193	1.00
146_F	167_R	1.191	1.00
88_E	92_R	1.187	1.00
11_V	120_I	1.184	1.00
28_L	90_K	1.183	1.00
8_L	176_T	1.181	1.00
69_T	72_S	1.145	1.00
87_L	95_L	1.145	1.00
11_V	129_Q	1.125	1.00
161_F	178_I	1.123	1.00
129_Q	147_V	1.119	1.00
87_L	91_Y	1.116	1.00
28_L	94_F	1.110	1.00
176_T	195_L	1.102	1.00
86_L	89_Q	1.099	1.00
107_D	221_E	1.098	1.00
146_F	164_V	1.095	1.00
161_F	189_G	1.095	1.00
101_L	138_L	1.084	1.00
89_Q	93_R	1.064	1.00
12_D	18_F	1.062	1.00
162_N	166_E	1.058	1.00
85_A	89_Q	1.049	1.00
29_L	33_Q	1.045	1.00
39_N	43_A	1.044	1.00
6_T	117_D	1.039	1.00
161_F	195_L	1.034	1.00
110_S	114_Q	1.026	1.00
120_I	142_F	1.016	1.00
121_V	164_V	1.014	1.00
113_Q	118_L	1.003	1.00
126_S	147_V	0.997	1.00
191_Q	197_T	0.996	1.00
137_G	140_P	0.996	1.00
6_T	176_T	0.995	1.00
109_I	142_F	0.993	1.00
24_L	27_R	0.988	1.00
159_E	163_Y	0.982	1.00
44_Q	47_T	0.969	1.00
11_V	124_G	0.967	1.00
24_L	28_L	0.965	1.00
28_L	31_E	0.963	1.00
76_K	79_G	0.954	1.00
187_I	213_P	0.952	1.00
27_R	31_E	0.949	1.00
40_D	44_Q	0.946	1.00
164_V	168_I	0.939	1.00
106_F	141_F	0.928	1.00
72_S	76_K	0.926	1.00
131_K	135_D	0.924	1.00
84_G	88_E	0.924	1.00
79_G	82_A	0.923	1.00
161_F	180_G	0.921	1.00
144_D	168_I	0.918	1.00
159_E	162_N	0.918	1.00
24_L	98_G	0.900	1.00
69_T	73_A	0.898	1.00
12_D	124_G	0.898	1.00
110_S	140_P	0.895	1.00
162_N	193_A	0.893	1.00
33_Q	86_L	0.890	1.00
107_D	110_S	0.887	1.00
178_I	195_L	0.882	1.00
151_T	163_Y	0.880	1.00
8_L	168_I	0.877	1.00
122_T	147_V	0.874	1.00
196_D	215_Y	0.866	1.00
6_T	119_Y	0.864	1.00
129_Q	132_R	0.860	1.00
126_S	149_E	0.859	1.00
68_N	72_S	0.858	1.00
104_G	219_K	0.852	1.00
131_K	134_R	0.852	1.00
185_A	188_K	0.852	1.00
162_N	173_A	0.848	1.00
96_E	131_K	0.845	1.00
217_I	223_L	0.845	1.00
109_I	141_F	0.843	1.00
73_A	76_K	0.835	1.00
101_L	106_F	0.830	1.00
191_Q	212_I	0.828	1.00
152_G	159_E	0.828	1.00
173_A	195_L	0.826	1.00
41_M	46_K	0.825	1.00
30_F	35_I	0.824	1.00
8_L	195_L	0.822	1.00
189_G	193_A	0.813	1.00
177_L	196_D	0.809	1.00
12_D	122_T	0.809	1.00
112_L	116_F	0.808	1.00
179_I	198_C	0.806	1.00
168_I	171_F	0.805	1.00
146_F	163_Y	0.803	1.00
38_T	41_M	0.792	1.00
102_I	105_A	0.792	1.00
102_I	200_M	0.790	1.00
118_L	141_F	0.787	1.00
23_A	27_R	0.786	1.00
119_Y	164_V	0.785	1.00
12_D	181_D	0.781	1.00
39_N	42_K	0.776	1.00
85_A	88_E	0.776	1.00
7_L	177_L	0.773	1.00
11_V	132_R	0.771	1.00
112_L	118_L	0.769	1.00
106_F	137_G	0.769	1.00
197_T	214_T	0.761	1.00
87_L	90_K	0.758	1.00
171_F	175_H	0.756	1.00
4_Y	116_F	0.755	1.00
147_V	150_D	0.754	1.00
182_S	185_A	0.751	1.00
46_K	50_Q	0.750	1.00
45_Y	48_I	0.750	1.00
199_W	216_E	0.749	1.00
160_Y	164_V	0.748	1.00
16_L	132_R	0.743	1.00
5_R	116_F	0.738	1.00
42_K	45_Y	0.736	1.00
4_Y	175_H	0.733	1.00
42_K	46_K	0.731	1.00
16_L	136_S	0.729	1.00
178_I	186_D	0.728	1.00
42_K	48_I	0.722	1.00
25_A	29_L	0.721	1.00
5_R	117_D	0.719	1.00
79_G	83_D	0.719	1.00
14_T	186_D	0.718	1.00
101_L	136_S	0.717	1.00
106_F	140_P	0.714	1.00
75_L	78_Y	0.713	1.00
208_V	212_I	0.710	1.00
161_F	186_D	0.709	1.00
187_I	199_W	0.708	1.00
123_N	154_Q	0.707	1.00
150_D	167_R	0.706	1.00
124_G	129_Q	0.704	1.00
40_D	43_A	0.702	1.00
70_R	74_L	0.697	1.00
104_G	221_E	0.695	1.00
202_P	220_L	0.692	1.00
5_R	171_F	0.689	1.00
198_C	223_L	0.684	1.00
93_R	96_E	0.684	1.00
179_I	223_L	0.682	1.00
118_L	143_K	0.681	1.00
31_E	36_P	0.677	1.00
91_Y	94_F	0.672	1.00
44_Q	48_I	0.666	1.00
41_M	48_I	0.665	1.00
41_M	44_Q	0.658	1.00
129_Q	145_I	0.657	1.00
20_A	100_Q	0.656	1.00
151_T	160_Y	0.653	1.00
8_L	119_Y	0.652	1.00
107_D	111_N	0.651	1.00
160_Y	189_G	0.650	1.00
188_K	191_Q	0.649	1.00
73_A	77_E	0.648	1.00
89_Q	92_R	0.641	1.00
133_L	139_F	0.641	1.00
217_I	220_L	0.641	1.00
22_E	26_L	0.641	1.00
75_L	80_Y	0.639	1.00
158_K	192_L	0.635	1.00
208_V	211_I	0.633	1.00
45_Y	49_N	0.628	1.00
144_D	164_V	0.625	1.00
71_F	75_L	0.624	1.00
130_Y	145_I	0.621	1.00
123_N	185_A	0.620	1.00
217_I	224_Y	0.619	1.00
22_E	124_G	0.619	1.00
17_D	100_Q	0.619	1.00
92_R	95_L	0.618	1.00
71_F	74_L	0.618	1.00
121_V	178_I	0.616	1.00
104_G	108_L	0.616	1.00
13_D	19_Q	0.614	1.00
146_F	160_Y	0.614	1.00
200_M	220_L	0.613	1.00
12_D	132_R	0.611	1.00
117_D	171_F	0.610	1.00
21_A	99_H	0.608	1.00
148_S	160_Y	0.603	1.00
123_N	156_P	0.600	1.00
88_E	95_L	0.599	1.00
17_D	20_A	0.599	1.00
220_L	224_Y	0.597	1.00
173_A	176_T	0.591	1.00
24_L	94_F	0.588	1.00
42_K	49_N	0.583	1.00
16_L	99_H	0.581	1.00
207_N	210_E	0.578	1.00
43_A	47_T	0.575	1.00
84_G	87_L	0.573	1.00
108_L	179_I	0.572	1.00
9_F	108_L	0.569	1.00
165_F	171_F	0.567	1.00
110_S	113_Q	0.564	1.00
113_Q	140_P	0.562	1.00
162_N	165_F	0.561	1.00
221_E	224_Y	0.561	1.00
92_R	96_E	0.561	1.00
165_F	193_A	0.558	1.00
142_F	145_I	0.558	1.00
201_N	206_P	0.557	1.00
185_A	189_G	0.555	1.00
178_I	189_G	0.554	1.00
199_W	213_P	0.554	1.00
8_L	161_F	0.553	1.00
104_G	202_P	0.551	1.00
124_G	180_G	0.548	1.00
41_M	45_Y	0.545	1.00
108_L	112_L	0.544	1.00
121_V	146_F	0.543	1.00
70_R	73_A	0.542	1.00
18_F	124_G	0.542	1.00
134_R	140_P	0.533	1.00
76_K	80_Y	0.530	1.00
22_E	87_L	0.529	1.00
14_T	200_M	0.528	1.00
7_L	118_L	0.526	1.00
44_Q	77_E	0.520	1.00
103_D	221_E	0.520	1.00
88_E	91_Y	0.518	1.00
199_W	208_V	0.518	1.00
161_F	190_G	0.511	1.00
133_L	138_L	0.509	1.00
105_A	108_L	0.504	1.00
190_G	193_A	0.502	1.00
87_L	94_F	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
3ed5A	1	0.9872	100	0.26	Contact Map
3iruA	4	0.9872	100	0.304	Contact Map
1swvA	2	0.966	100	0.311	Contact Map
2om6A	2	0.9617	100	0.319	Contact Map
3qnmA	1	0.9574	100	0.322	Contact Map
3l5kA	1	0.9149	100	0.325	Contact Map
4uw9A	1	0.8511	100	0.327	Contact Map
2fdrA	1	0.8894	100	0.332	Contact Map
2no4A	4	0.9489	100	0.335	Contact Map
1zrnA	2	0.9277	100	0.336	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.

Page generated in 0.0082 seconds.