YUNF - BACSU - GREMLIN Contacts

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YUNF - UPF0759 protein YunF

UniProt:	O32135	Sequences: MIYIGLTGWGDHDSIYPPKTASQKKLQAYSSHFPIVELDASFYAIQPARNNEKWVKETPETFQFIVKAYQGMTGHQRGEIPFDSKEEMFDAFKVSLTPYLHSNKLAMVLFQFPPWFDCKKENVAYLRWCKHQMGDIPCALEFRNRSWFSPPFYEQTLSFMKAEGWIHSVCDEPQIGEGSVPTVLRATDENKTLVRFHGRNKQGWMKPDGGKNWREVRYLYRYNQQELEDWKKHLNELQQQCKDVFVLFNNNSGGDAADNGKQMLELLDIEYSGLAPRQLDLF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	282 (236)
Sequences:	2584 (1816)
Seq/√Len:	118.2

ECOLI - YECE
BACSU - YUNF
SULSO - Q97ZW8 Q97ZT4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
35_I	247_L	4.652	1.00
228_E	266_L	4.499	1.00
224_Q	262_Q	4.120	1.00
24_K	27_Q	3.722	1.00
21_A	24_K	3.075	1.00
58_T	104_K	3.006	1.00
142_F	156_T	2.751	1.00
32_H	261_K	2.626	1.00
68_A	110_F	2.597	1.00
53_K	57_E	2.454	1.00
73_T	110_F	2.380	1.00
55_V	100_L	2.297	1.00
139_A	168_S	2.297	1.00
90_D	94_V	2.296	1.00
48_A	52_E	2.287	1.00
118_C	146_S	2.119	1.00
227_L	266_L	2.069	1.00
3_Y	34_P	2.065	1.00
2_I	238_Q	1.938	1.00
250_N	256_A	1.862	1.00
46_Q	51_N	1.838	1.00
41_S	51_N	1.818	1.00
161_K	185_R	1.817	1.00
262_Q	265_E	1.816	1.00
196_F	246_V	1.796	1.00
234_L	246_V	1.775	1.00
11_D	14_S	1.771	1.00
65_I	247_L	1.763	1.00
58_T	64_F	1.752	1.00
34_P	264_L	1.746	1.00
191_K	245_F	1.708	1.00
194_V	230_W	1.694	1.00
17_P	28_A	1.686	1.00
26_L	58_T	1.686	1.00
234_L	263_M	1.617	1.00
118_C	156_T	1.592	1.00
100_L	103_N	1.586	1.00
47_P	50_N	1.554	1.00
124_A	128_W	1.546	1.00
6_L	29_Y	1.538	1.00
231_K	235_N	1.532	1.00
106_A	245_F	1.530	1.00
223_N	226_E	1.512	1.00
87_E	91_A	1.487	1.00
129_C	133_M	1.486	1.00
29_Y	36_V	1.484	1.00
86_E	132_Q	1.481	1.00
4_I	264_L	1.475	1.00
140_L	160_M	1.474	1.00
27_Q	57_E	1.471	1.00
59_P	104_K	1.461	1.00
51_N	99_Y	1.460	1.00
166_I	188_D	1.455	1.00
130_K	165_W	1.439	1.00
125_Y	129_C	1.433	1.00
61_T	103_N	1.423	1.00
133_M	138_C	1.407	1.00
166_I	191_K	1.400	1.00
3_Y	63_Q	1.399	1.00
221_R	255_D	1.396	1.00
52_E	98_P	1.384	1.00
159_F	163_E	1.381	1.00
7_T	247_L	1.381	1.00
66_V	99_Y	1.377	1.00
124_A	163_E	1.376	1.00
63_Q	245_F	1.370	1.00
157_L	185_R	1.366	1.00
203_G	220_Y	1.353	1.00
117_D	144_N	1.338	1.00
188_D	191_K	1.332	1.00
127_R	163_E	1.330	1.00
110_F	138_C	1.322	1.00
192_T	244_V	1.316	1.00
63_Q	106_A	1.288	1.00
139_A	166_I	1.266	0.99
127_R	131_H	1.259	0.99
3_Y	243_D	1.255	0.99
89_F	93_K	1.234	0.99
46_Q	95_S	1.229	0.99
158_S	162_A	1.227	0.99
38_L	50_N	1.224	0.99
221_R	259_N	1.221	0.99
52_E	56_K	1.215	0.99
49_R	52_E	1.199	0.99
137_P	189_E	1.198	0.99
259_N	262_Q	1.191	0.99
9_W	38_L	1.185	0.99
16_Y	20_T	1.184	0.99
65_I	107_M	1.179	0.99
221_R	258_D	1.178	0.99
53_K	56_K	1.177	0.99
107_M	245_F	1.168	0.99
55_V	104_K	1.156	0.99
131_H	163_E	1.147	0.99
189_E	242_K	1.135	0.99
22_S	25_K	1.131	0.99
77_R	115_W	1.130	0.99
126_L	129_C	1.124	0.99
91_A	94_V	1.116	0.99
51_N	96_L	1.113	0.99
127_R	162_A	1.101	0.99
27_Q	31_S	1.084	0.98
68_A	108_V	1.082	0.98
38_L	64_F	1.080	0.98
157_L	161_K	1.077	0.98
12_H	22_S	1.072	0.98
3_Y	245_F	1.065	0.98
197_H	250_N	1.065	0.98
8_G	11_D	1.065	0.98
107_M	191_K	1.061	0.98
17_P	20_T	1.054	0.98
55_V	103_N	1.049	0.98
26_L	64_F	1.042	0.98
231_K	263_M	1.038	0.98
112_F	123_V	1.036	0.98
44_A	47_P	1.033	0.98
105_L	108_V	1.033	0.98
164_G	189_E	1.032	0.98
11_D	251_N	1.030	0.98
9_W	54_W	1.030	0.98
158_S	161_K	1.028	0.98
93_K	108_V	1.025	0.98
71_G	88_M	1.025	0.98
4_I	263_M	1.024	0.98
49_R	53_K	1.021	0.98
88_M	91_A	1.005	0.97
224_Q	266_L	0.996	0.97
127_R	159_F	0.992	0.97
197_H	259_N	0.991	0.97
28_A	32_H	0.984	0.97
171_D	199_R	0.981	0.97
219_L	252_S	0.974	0.97
72_M	89_F	0.964	0.97
222_Y	248_F	0.959	0.96
173_P	198_G	0.957	0.96
48_A	95_S	0.955	0.96
157_L	167_H	0.952	0.96
13_D	254_G	0.946	0.96
236_E	240_Q	0.945	0.96
133_M	136_I	0.939	0.96
248_F	263_M	0.933	0.96
248_F	259_N	0.926	0.96
62_F	104_K	0.924	0.96
71_G	76_Q	0.915	0.95
20_T	28_A	0.915	0.95
71_G	75_H	0.914	0.95
55_V	99_Y	0.912	0.95
196_F	249_N	0.909	0.95
218_Y	249_N	0.906	0.95
15_I	25_K	0.904	0.95
41_S	92_F	0.903	0.95
48_A	94_V	0.901	0.95
4_I	267_L	0.896	0.95
137_P	243_D	0.895	0.95
107_M	193_L	0.890	0.95
197_H	222_Y	0.878	0.94
199_R	226_E	0.873	0.94
38_L	66_V	0.871	0.94
126_L	133_M	0.871	0.94
107_M	139_A	0.869	0.94
30_S	58_T	0.863	0.94
140_L	165_W	0.860	0.94
28_A	31_S	0.859	0.94
87_E	90_D	0.858	0.94
197_H	249_N	0.856	0.93
45_I	95_S	0.856	0.93
86_E	90_D	0.854	0.93
234_L	244_V	0.854	0.93
184_L	230_W	0.854	0.93
186_A	192_T	0.847	0.93
42_F	113_P	0.846	0.93
48_A	98_P	0.842	0.93
112_F	129_C	0.839	0.93
70_Q	75_H	0.837	0.93
184_L	233_H	0.835	0.93
235_N	239_Q	0.832	0.92
192_T	241_C	0.831	0.92
65_I	193_L	0.829	0.92
224_Q	228_E	0.828	0.92
230_W	233_H	0.824	0.92
248_F	260_G	0.824	0.92
148_F	167_H	0.813	0.92
197_H	251_N	0.810	0.91
229_D	233_H	0.807	0.91
147_W	156_T	0.798	0.91
198_G	220_Y	0.795	0.91
13_D	251_N	0.794	0.91
74_G	113_P	0.791	0.90
4_I	260_G	0.788	0.90
221_R	262_Q	0.784	0.90
2_I	267_L	0.773	0.89
42_F	74_G	0.768	0.89
93_K	136_I	0.763	0.89
150_P	185_R	0.763	0.89
39_D	74_G	0.761	0.89
231_K	267_L	0.761	0.89
261_K	264_L	0.761	0.89
84_S	88_M	0.758	0.88
140_L	156_T	0.757	0.88
97_T	135_D	0.749	0.88
66_V	96_L	0.749	0.88
198_G	250_N	0.748	0.88
51_N	95_S	0.744	0.88
77_R	116_F	0.742	0.87
199_R	220_Y	0.741	0.87
191_K	243_D	0.741	0.87
137_P	191_K	0.739	0.87
128_W	132_Q	0.738	0.87
19_K	99_Y	0.737	0.87
67_K	111_Q	0.735	0.87
118_C	149_S	0.735	0.87
69_Y	72_M	0.735	0.87
61_T	189_E	0.734	0.87
106_A	243_D	0.732	0.87
60_E	104_K	0.731	0.87
194_V	234_L	0.725	0.86
7_T	249_N	0.722	0.86
94_V	97_T	0.720	0.86
233_H	236_E	0.719	0.86
250_N	259_N	0.719	0.86
16_Y	19_K	0.713	0.85
16_Y	24_K	0.708	0.85
161_K	189_E	0.707	0.85
182_T	233_H	0.706	0.85
169_V	237_L	0.703	0.84
198_G	218_Y	0.703	0.84
109_L	250_N	0.702	0.84
199_R	250_N	0.701	0.84
160_M	167_H	0.700	0.84
85_K	88_M	0.697	0.84
7_T	14_S	0.696	0.84
69_Y	91_A	0.692	0.83
3_Y	106_A	0.690	0.83
265_E	269_I	0.688	0.83
112_F	116_F	0.682	0.83
128_W	131_H	0.682	0.83
110_F	140_L	0.681	0.82
61_T	104_K	0.679	0.82
112_F	125_Y	0.678	0.82
15_I	22_S	0.674	0.82
160_M	165_W	0.673	0.82
124_A	131_H	0.670	0.81
68_A	73_T	0.669	0.81
169_V	194_V	0.668	0.81
196_F	230_W	0.667	0.81
59_P	62_F	0.666	0.81
7_T	39_D	0.665	0.81
68_A	138_C	0.661	0.81
45_I	69_Y	0.653	0.80
169_V	182_T	0.652	0.80
109_L	168_S	0.649	0.79
142_F	157_L	0.648	0.79
38_L	41_S	0.647	0.79
91_A	95_S	0.647	0.79
228_E	231_K	0.646	0.79
35_I	245_F	0.644	0.79
138_C	165_W	0.643	0.79
13_D	253_G	0.643	0.79
145_R	148_F	0.642	0.79
72_M	88_M	0.640	0.78
73_T	113_P	0.637	0.78
142_F	147_W	0.636	0.78
186_A	241_C	0.633	0.78
47_P	95_S	0.627	0.77
222_Y	227_L	0.626	0.77
85_K	89_F	0.626	0.77
51_N	66_V	0.625	0.77
83_D	87_E	0.624	0.77
41_S	96_L	0.624	0.77
186_A	240_Q	0.623	0.77
173_P	226_E	0.623	0.77
10_G	22_S	0.619	0.76
199_R	223_N	0.616	0.76
67_K	143_R	0.616	0.76
167_H	170_C	0.614	0.76
192_T	242_K	0.613	0.75
255_D	258_D	0.612	0.75
200_N	226_E	0.608	0.75
48_A	97_T	0.607	0.75
64_F	104_K	0.605	0.74
223_N	259_N	0.605	0.74
30_S	57_E	0.604	0.74
108_V	136_I	0.603	0.74
96_L	105_L	0.602	0.74
228_E	262_Q	0.599	0.74
123_V	127_R	0.598	0.74
230_W	237_L	0.596	0.73
20_T	25_K	0.594	0.73
69_Y	92_F	0.584	0.72
251_N	259_N	0.584	0.72
111_Q	143_R	0.583	0.72
38_L	51_N	0.582	0.72
130_K	164_G	0.581	0.71
246_V	263_M	0.578	0.71
116_F	142_F	0.577	0.71
109_L	197_H	0.576	0.71
173_P	249_N	0.576	0.71
76_Q	84_S	0.572	0.70
55_V	58_T	0.571	0.70
50_N	53_K	0.570	0.70
222_Y	260_G	0.569	0.70
250_N	254_G	0.568	0.70
8_G	193_L	0.567	0.70
231_K	266_L	0.566	0.70
34_P	61_T	0.566	0.70
7_T	11_D	0.564	0.69
167_H	183_V	0.563	0.69
27_Q	32_H	0.562	0.69
225_Q	229_D	0.559	0.69
235_N	238_Q	0.555	0.68
76_Q	88_M	0.552	0.68
123_V	159_F	0.550	0.67
54_W	62_F	0.548	0.67
10_G	40_A	0.547	0.67
232_K	235_N	0.546	0.67
78_G	112_F	0.545	0.67
96_L	108_V	0.544	0.67
23_Q	57_E	0.543	0.66
2_I	15_I	0.543	0.66
84_S	89_F	0.541	0.66
75_H	115_W	0.539	0.66
232_K	236_E	0.537	0.66
158_S	232_K	0.535	0.65
126_L	130_K	0.534	0.65
109_L	116_F	0.534	0.65
219_L	253_G	0.532	0.65
28_A	261_K	0.531	0.65
37_E	54_W	0.530	0.65
76_Q	85_K	0.530	0.65
41_S	248_F	0.529	0.64
8_G	20_T	0.525	0.64
29_Y	33_F	0.525	0.64
89_F	129_C	0.524	0.64
39_D	247_L	0.520	0.63
192_T	237_L	0.519	0.63
68_A	89_F	0.517	0.63
129_C	138_C	0.514	0.62
238_Q	241_C	0.513	0.62
148_F	157_L	0.513	0.62
170_C	220_Y	0.512	0.62
125_Y	128_W	0.512	0.62
15_I	20_T	0.511	0.62
197_H	218_Y	0.510	0.62
113_P	116_F	0.510	0.62
226_E	259_N	0.510	0.62
74_G	78_G	0.509	0.61
150_P	158_S	0.507	0.61
7_T	40_A	0.505	0.61
31_S	34_P	0.504	0.61
5_G	8_G	0.503	0.61
77_R	84_S	0.503	0.61
130_K	159_F	0.501	0.60
151_P	188_D	0.500	0.60
75_H	251_N	0.500	0.60

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
1vpyA	1	0.8759	100	0.142	Contact Map
1vpqA	2	0.8936	100	0.152	Contact Map
3wqoA	2	0.8794	88.7	0.943	Contact Map
3aamA	1	0.8546	85.6	0.946	Contact Map
1k77A	1	0.8369	83.1	0.948	Contact Map
3ngfA	1	0.8298	81.3	0.949	Contact Map
3kwsA	2	0.8298	78.3	0.95	Contact Map
2hk0A	3	0.8298	75.7	0.951	Contact Map
4hnoA	1	0.8652	71.5	0.953	Contact Map
2g0wA	1	0.8901	64.7	0.955	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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