YODP - BACSU - GREMLIN Contacts

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YODP - N-acetyltransferase YodP

UniProt:	O34895	Sequences: MLKSIKSSGVTAVLDHDGFNKRIRVVRYDGAIEKALPDIVAAAKEENAEKIIVYAKQHDEPILAKQLFAPEGYLKGYYLGHSACVMVRYLSESRRQTDSYTEEQEIIEAIYRTAPRLRNDSTPVFTMRKAETNDMYQLSMLYKKVFRTYPTPVFDPAYIEKTMNANTVYYIMLDHDRLISAASAEINPELGHAEITDCAVLPEYRGHSLTSFLIEALEKEMAGEDIVHVFSLARASSFGMNAVLYHSGYQYGGRLINNCFIAEGLENMNIWCKQL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	275 (265)
Sequences:	219 (200)
Seq/√Len:	12.3

BACSU - YODP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
162_T	169_Y	7.640	1.00
138_L	181_A	5.203	1.00
125_F	204_Y	5.136	1.00
130_A	171_I	4.228	1.00
72_G	270_I	3.984	0.99
72_G	232_L	3.598	0.99
195_I	214_I	3.186	0.97
192_H	230_F	3.134	0.97
128_R	134_D	3.012	0.96
75_K	252_G	2.939	0.95
128_R	173_L	2.854	0.95
104_Q	254_R	2.836	0.94
231_S	244_L	2.812	0.94
76_G	235_A	2.793	0.94
138_L	159_I	2.538	0.90
21_K	49_E	2.530	0.90
237_S	240_M	2.411	0.88
193_A	221_M	2.404	0.88
128_R	191_G	2.153	0.81
142_Y	181_A	2.136	0.80
182_A	217_L	2.106	0.79
143_K	154_F	2.075	0.78
77_Y	83_A	2.070	0.78
130_A	134_D	2.050	0.77
40_V	88_R	2.038	0.77
74_L	77_Y	1.964	0.74
132_T	164_N	1.882	0.71
158_Y	230_F	1.856	0.70
186_I	204_Y	1.804	0.67
17_D	198_C	1.803	0.67
142_Y	197_D	1.792	0.67
171_I	178_L	1.792	0.67
151_T	198_C	1.778	0.66
54_Y	85_V	1.746	0.65
200_V	208_S	1.742	0.65
54_Y	185_E	1.711	0.63
141_L	181_A	1.685	0.62
198_C	210_T	1.657	0.61
89_Y	270_I	1.653	0.60
163_M	169_Y	1.633	0.59
196_T	218_E	1.604	0.58
130_A	181_A	1.592	0.57
24_R	259_C	1.592	0.57
145_V	199_A	1.589	0.57
24_R	210_T	1.587	0.57
148_T	262_A	1.559	0.56
151_T	259_C	1.553	0.55
198_C	259_C	1.540	0.55
16_H	48_A	1.524	0.54
148_T	260_F	1.521	0.54
187_N	190_L	1.518	0.54
24_R	198_C	1.487	0.52
23_I	235_A	1.477	0.52
214_I	244_L	1.474	0.51
218_E	249_Y	1.458	0.51
74_L	83_A	1.448	0.50
233_A	244_L	1.430	0.49
158_Y	162_T	1.408	0.48
257_N	267_N	1.401	0.48
261_I	268_M	1.391	0.47
130_A	173_L	1.391	0.47
151_T	217_L	1.378	0.47
28_Y	59_D	1.378	0.47
161_K	251_Y	1.375	0.46
85_V	185_E	1.363	0.46
110_I	245_Y	1.362	0.46
24_R	54_Y	1.357	0.46
72_G	214_I	1.338	0.45
12_A	182_A	1.327	0.44
178_L	208_S	1.323	0.44
75_K	272_C	1.322	0.44
210_T	244_L	1.320	0.44
148_T	263_E	1.317	0.44
218_E	273_K	1.314	0.43
17_D	259_C	1.308	0.43
260_F	263_E	1.304	0.43
198_C	217_L	1.296	0.42
134_D	173_L	1.282	0.42
170_Y	217_L	1.259	0.41
186_I	226_I	1.250	0.40
20_N	251_Y	1.245	0.40
72_G	85_V	1.234	0.39
54_Y	244_L	1.231	0.39
18_G	47_N	1.229	0.39
180_S	200_V	1.228	0.39
14_L	123_P	1.222	0.39
50_K	258_N	1.222	0.39
172_M	179_I	1.219	0.39
159_I	182_A	1.216	0.39
85_V	230_F	1.201	0.38
17_D	24_R	1.199	0.38
201_L	240_M	1.188	0.37
15_D	259_C	1.184	0.37
173_L	176_D	1.178	0.37
244_L	267_N	1.170	0.36
17_D	151_T	1.167	0.36
148_T	195_I	1.158	0.36
42_A	63_L	1.137	0.35
27_R	231_S	1.135	0.35
49_E	68_F	1.131	0.35
56_K	185_E	1.128	0.34
149_Y	196_T	1.122	0.34
107_I	139_S	1.120	0.34
213_L	255_L	1.111	0.34
25_V	53_V	1.102	0.33
259_C	267_N	1.100	0.33
125_F	209_L	1.098	0.33
62_I	89_Y	1.097	0.33
53_V	63_L	1.097	0.33
121_S	127_M	1.095	0.33
110_I	242_A	1.094	0.33
12_A	35_A	1.093	0.33
72_G	244_L	1.092	0.33
151_T	214_I	1.074	0.32
64_A	166_N	1.073	0.32
213_L	244_L	1.061	0.31
234_R	266_E	1.061	0.31
49_E	86_M	1.059	0.31
54_Y	72_G	1.042	0.31
239_G	242_A	1.034	0.30
182_A	259_C	1.028	0.30
72_G	210_T	1.025	0.30
24_R	267_N	1.023	0.30
184_A	193_A	1.020	0.30
240_M	243_V	1.016	0.29
199_A	261_I	1.016	0.29
211_S	243_V	1.014	0.29
235_A	271_W	1.011	0.29
196_T	233_A	1.003	0.29
233_A	237_S	0.999	0.29
121_S	172_M	0.993	0.29
137_Q	219_K	0.989	0.28
236_S	264_G	0.988	0.28
193_A	229_V	0.985	0.28
211_S	247_S	0.981	0.28
72_G	75_K	0.980	0.28
48_A	244_L	0.965	0.27
137_Q	251_Y	0.955	0.27
17_D	267_N	0.953	0.27
54_Y	233_A	0.950	0.27
11_T	176_D	0.932	0.26
130_A	178_L	0.922	0.26
39_I	51_I	0.918	0.26
246_H	254_R	0.917	0.25
104_Q	251_Y	0.915	0.25
22_R	197_D	0.915	0.25
142_Y	153_V	0.907	0.25
137_Q	177_R	0.898	0.25
193_A	226_I	0.894	0.25
22_R	149_Y	0.883	0.24
200_V	235_A	0.876	0.24
214_I	231_S	0.874	0.24
77_Y	228_H	0.871	0.24
173_L	178_L	0.868	0.24
45_E	91_S	0.866	0.24
210_T	259_C	0.863	0.23
194_E	266_E	0.858	0.23
97_T	267_N	0.856	0.23
149_Y	152_P	0.851	0.23
24_R	151_T	0.848	0.23
220_E	233_A	0.846	0.23
39_I	77_Y	0.842	0.23
54_Y	198_C	0.840	0.23
72_G	88_R	0.839	0.23
219_K	222_A	0.839	0.23
17_D	272_C	0.837	0.23
87_V	190_L	0.837	0.23
191_G	228_H	0.836	0.22
146_F	196_T	0.834	0.22
68_F	172_M	0.833	0.22
146_F	152_P	0.830	0.22
76_G	147_R	0.830	0.22
130_A	267_N	0.829	0.22
48_A	252_G	0.828	0.22
26_V	151_T	0.828	0.22
232_L	268_M	0.826	0.22
184_A	200_V	0.824	0.22
14_L	60_E	0.823	0.22
63_L	214_I	0.821	0.22
243_V	254_R	0.819	0.22
217_L	259_C	0.815	0.22
185_E	230_F	0.814	0.22
135_M	160_E	0.805	0.21
33_E	43_A	0.803	0.21
54_Y	232_L	0.803	0.21
159_I	254_R	0.800	0.21
39_I	139_S	0.789	0.21
18_G	182_A	0.786	0.21
183_S	221_M	0.786	0.21
15_D	151_T	0.783	0.21
170_Y	220_E	0.781	0.21
16_H	75_K	0.781	0.21
146_F	149_Y	0.780	0.21
54_Y	210_T	0.778	0.20
74_L	85_V	0.776	0.20
184_A	221_M	0.775	0.20
25_V	73_Y	0.775	0.20
172_M	209_L	0.775	0.20
90_L	270_I	0.774	0.20
112_R	120_D	0.774	0.20
23_I	169_Y	0.773	0.20
16_H	267_N	0.770	0.20
196_T	249_Y	0.769	0.20
73_Y	176_D	0.768	0.20
232_L	270_I	0.765	0.20
209_L	256_I	0.764	0.20
88_R	232_L	0.764	0.20
17_D	231_S	0.762	0.20
201_L	242_A	0.761	0.20
15_D	56_K	0.760	0.20
64_A	86_M	0.755	0.20
171_I	272_C	0.754	0.20
107_I	141_L	0.754	0.20
198_C	272_C	0.753	0.20
17_D	21_K	0.752	0.20
151_T	210_T	0.750	0.20
78_Y	138_L	0.743	0.19
142_Y	226_I	0.736	0.19
149_Y	268_M	0.730	0.19
68_F	170_Y	0.730	0.19
35_A	38_D	0.729	0.19
123_P	129_K	0.728	0.19
49_E	110_I	0.728	0.19
184_A	217_L	0.723	0.19
63_L	245_Y	0.721	0.19
206_G	274_Q	0.718	0.19
259_C	272_C	0.714	0.18
88_R	159_I	0.707	0.18
22_R	268_M	0.705	0.18
146_F	199_A	0.704	0.18
89_Y	178_L	0.702	0.18
187_N	231_S	0.701	0.18
126_T	226_I	0.701	0.18
76_G	270_I	0.699	0.18
186_I	193_A	0.699	0.18
15_D	52_I	0.699	0.18
48_A	72_G	0.696	0.18
102_E	248_G	0.696	0.18
155_D	186_I	0.694	0.18
201_L	265_L	0.694	0.18
208_S	265_L	0.693	0.18
69_A	95_R	0.689	0.18
69_A	90_L	0.688	0.18
228_H	272_C	0.688	0.18
56_K	267_N	0.686	0.18
130_A	168_V	0.685	0.18
113_T	242_A	0.684	0.18
136_Y	160_E	0.684	0.18
71_E	94_R	0.683	0.18
52_I	268_M	0.681	0.17
145_V	233_A	0.681	0.17
23_I	137_Q	0.680	0.17
179_I	273_K	0.677	0.17
159_I	206_G	0.676	0.17
74_L	230_F	0.675	0.17
183_S	197_D	0.674	0.17
95_R	104_Q	0.674	0.17
210_T	233_A	0.671	0.17
214_I	233_A	0.669	0.17
135_M	139_S	0.668	0.17
159_I	167_T	0.665	0.17
38_D	41_A	0.665	0.17
195_I	210_T	0.664	0.17
16_H	272_C	0.663	0.17
77_Y	265_L	0.662	0.17
60_E	64_A	0.657	0.17
20_N	161_K	0.657	0.17
198_C	232_L	0.656	0.17
56_K	190_L	0.656	0.17
152_P	268_M	0.653	0.17
56_K	259_C	0.649	0.17
198_C	267_N	0.649	0.17
24_R	254_R	0.648	0.17
35_A	55_A	0.648	0.17
74_L	269_N	0.648	0.17
178_L	235_A	0.648	0.17
17_D	56_K	0.647	0.16
82_S	120_D	0.643	0.16
156_P	225_D	0.641	0.16
50_K	71_E	0.640	0.16
91_S	132_T	0.640	0.16
60_E	84_C	0.639	0.16
102_E	105_E	0.637	0.16
14_L	171_I	0.637	0.16
178_L	224_E	0.636	0.16
52_I	195_I	0.631	0.16
40_V	51_I	0.631	0.16
20_N	208_S	0.631	0.16
55_A	238_F	0.625	0.16
46_E	112_R	0.625	0.16
78_Y	134_D	0.622	0.16
145_V	261_I	0.620	0.16
203_E	246_H	0.619	0.16
89_Y	213_L	0.615	0.16
16_H	198_C	0.614	0.16
83_A	262_A	0.612	0.16
55_A	88_R	0.610	0.15
107_I	133_N	0.607	0.15
92_E	179_I	0.606	0.15
52_I	198_C	0.605	0.15
26_V	259_C	0.605	0.15
174_D	204_Y	0.603	0.15
127_M	135_M	0.599	0.15
133_N	179_I	0.599	0.15
134_D	176_D	0.598	0.15
17_D	48_A	0.597	0.15
145_V	249_Y	0.595	0.15
72_G	233_A	0.592	0.15
65_K	124_V	0.591	0.15
143_K	186_I	0.584	0.15
54_Y	237_S	0.584	0.15
236_S	246_H	0.583	0.15
127_M	212_F	0.582	0.15
201_L	237_S	0.572	0.14
143_K	181_A	0.571	0.14
153_V	180_S	0.571	0.14
246_H	270_I	0.571	0.14
75_K	244_L	0.569	0.14
82_S	192_H	0.568	0.14
161_K	165_A	0.568	0.14
221_M	242_A	0.568	0.14
151_T	231_S	0.566	0.14
77_Y	236_S	0.566	0.14
198_C	231_S	0.561	0.14
168_V	224_E	0.561	0.14
121_S	124_V	0.560	0.14
68_F	213_L	0.559	0.14
102_E	108_E	0.557	0.14
178_L	230_F	0.556	0.14
122_T	127_M	0.556	0.14
61_P	206_G	0.553	0.14
150_P	194_E	0.552	0.14
25_V	178_L	0.550	0.14
45_E	166_N	0.550	0.14
110_I	246_H	0.549	0.14
193_A	242_A	0.548	0.14
72_G	83_A	0.546	0.14
169_Y	231_S	0.544	0.14
27_R	190_L	0.543	0.14
123_P	224_E	0.543	0.14
125_F	200_V	0.541	0.14
180_S	210_T	0.539	0.14
184_A	254_R	0.539	0.14
25_V	139_S	0.538	0.14
176_D	200_V	0.537	0.14
130_A	135_M	0.536	0.14
199_A	233_A	0.535	0.14
139_S	156_P	0.535	0.14
119_N	144_K	0.533	0.14
24_R	85_V	0.532	0.14
76_G	89_Y	0.532	0.14
26_V	231_S	0.531	0.13
162_T	166_N	0.529	0.13
213_L	257_N	0.528	0.13
15_D	24_R	0.528	0.13
241_N	269_N	0.528	0.13
130_A	138_L	0.528	0.13
16_H	56_K	0.526	0.13
91_S	219_K	0.526	0.13
158_Y	186_I	0.524	0.13
86_M	154_F	0.523	0.13
48_A	151_T	0.522	0.13
19_F	260_F	0.522	0.13
169_Y	212_F	0.520	0.13
24_R	214_I	0.519	0.13
89_Y	124_V	0.519	0.13
74_L	134_D	0.519	0.13
210_T	217_L	0.519	0.13
193_A	217_L	0.519	0.13
195_I	232_L	0.519	0.13
235_A	239_G	0.518	0.13
23_I	124_V	0.518	0.13
185_E	255_L	0.516	0.13
106_I	109_A	0.515	0.13
169_Y	185_E	0.513	0.13
23_I	118_R	0.512	0.13
158_Y	192_H	0.512	0.13
149_Y	185_E	0.512	0.13
196_T	232_L	0.512	0.13
166_N	228_H	0.511	0.13
46_E	79_L	0.509	0.13
19_F	23_I	0.509	0.13
151_T	267_N	0.508	0.13
48_A	259_C	0.508	0.13
109_A	238_F	0.508	0.13
20_N	87_V	0.506	0.13
161_K	167_T	0.506	0.13
122_T	125_F	0.506	0.13
229_V	272_C	0.505	0.13
15_D	244_L	0.504	0.13
138_L	142_Y	0.504	0.13
153_V	198_C	0.504	0.13
53_V	210_T	0.503	0.13
41_A	44_K	0.501	0.13
197_D	268_M	0.501	0.13
78_Y	166_N	0.500	0.13
144_K	203_E	0.500	0.13
44_K	157_A	0.500	0.13

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
3iwgA	2	0.8582	99.7	0.837	Contact Map
2wpxA	1	0.8364	99.7	0.842	Contact Map
2ob0A	1	0.5491	99.7	0.844	Contact Map
1yr0A	2	0.5527	99.7	0.846	Contact Map
1gheA	1	0.5491	99.6	0.847	Contact Map
4l8aA	1	0.5491	99.6	0.848	Contact Map
2ae6A	4	0.5273	99.6	0.848	Contact Map
3kkwA	1	0.5745	99.6	0.849	Contact Map
3owcA	1	0.5491	99.6	0.849	Contact Map
4mbuA	2	0.5564	99.6	0.849	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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