YKPB - BACSU - GREMLIN Contacts

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YKPB - Uncharacterized oxidoreductase YkpB

UniProt:	O31717	Sequences: MKFLVVGAGGVGGYIGGRLSEKGNDVTFLVRQKRAEQLKKTGLVIHSEKGNVSFQPELISAGETGQFDVVIIASKAYSLGQVIEDVKPFIHQESVIIPFLNGYRHYEQLFAAFSKEQVLGGLCFIESALDNKGEIHHTSASHRFVFGEWNGERTERIRALEEAFSGVKAEVIISGHIEKDIWKKYLFIAAQAGITTLFQRPLGPILATEAGRHTAQTLIGEICTVLRKEGVPADPALEEESFRTMTSMSYHMKSSMLRDMENGQTTEGDHLHGFLIEKAKRLSLAAPVLETVYANLQMYEAEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	303 (297)
Sequences:	5067 (3936)
Seq/√Len:	228.4

ECOLI - PANE
BACSU - YKPB PANE
HALSA - PANE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
253_K	261_E	4.561	1.00
280_K	290_E	4.549	1.00
279_A	286_A	3.777	1.00
229_E	282_L	3.424	1.00
195_T	254_S	2.961	1.00
2_K	25_D	2.899	1.00
16_G	28_F	2.886	1.00
4_L	67_F	2.847	1.00
272_H	289_L	2.756	1.00
225_V	286_A	2.732	1.00
218_L	292_V	2.721	1.00
36_E	40_K	2.580	1.00
148_E	154_T	2.519	1.00
276_I	290_E	2.469	1.00
79_L	100_L	2.370	1.00
278_K	281_R	2.307	1.00
286_A	290_E	2.296	1.00
199_Q	261_E	2.275	1.00
269_D	297_Q	2.247	1.00
69_V	97_I	2.227	1.00
71_I	97_I	2.192	1.00
148_E	156_R	2.187	1.00
257_L	261_E	2.157	1.00
253_K	257_L	2.111	1.00
229_E	278_K	2.036	1.00
46_H	134_E	2.014	1.00
188_I	192_A	2.009	1.00
3_F	163_A	1.905	1.00
218_L	288_V	1.864	1.00
6_V	82_V	1.850	1.00
182_W	226_L	1.792	1.00
21_E	52_V	1.790	1.00
8_A	28_F	1.790	1.00
18_R	21_E	1.770	1.00
35_A	39_K	1.755	1.00
80_G	108_Q	1.747	1.00
33_K	36_E	1.709	1.00
201_P	204_P	1.697	1.00
44_V	51_N	1.692	1.00
47_S	137_H	1.662	1.00
186_L	222_I	1.661	1.00
176_H	179_K	1.655	1.00
69_V	160_L	1.653	1.00
217_T	288_V	1.645	1.00
276_I	286_A	1.636	1.00
99_F	121_G	1.616	1.00
199_Q	257_L	1.596	1.00
37_Q	41_T	1.585	1.00
147_G	177_I	1.583	1.00
158_R	162_E	1.582	1.00
60_S	63_E	1.570	1.00
84_E	112_A	1.563	1.00
87_K	112_A	1.557	1.00
3_F	69_V	1.542	1.00
216_Q	239_E	1.540	1.00
278_K	282_L	1.540	1.00
13_G	135_I	1.539	1.00
189_A	222_I	1.537	1.00
145_V	174_S	1.528	1.00
114_S	117_Q	1.523	1.00
119_L	157_I	1.522	1.00
285_A	290_E	1.512	1.00
143_R	172_I	1.510	1.00
32_Q	36_E	1.501	1.00
293_Y	297_Q	1.497	1.00
79_L	105_H	1.486	1.00
269_D	293_Y	1.479	1.00
196_T	260_M	1.477	1.00
130_D	136_H	1.476	1.00
197_L	295_N	1.461	1.00
46_H	51_N	1.455	1.00
266_T	296_L	1.447	1.00
91_H	94_S	1.445	1.00
268_G	296_L	1.442	1.00
174_S	180_D	1.421	1.00
90_I	94_S	1.421	1.00
24_N	166_G	1.408	1.00
272_H	293_Y	1.398	1.00
225_V	275_L	1.393	1.00
44_V	53_S	1.388	1.00
193_G	256_M	1.379	1.00
161_E	165_S	1.372	1.00
106_Y	181_I	1.357	1.00
32_Q	35_A	1.351	1.00
46_H	136_H	1.351	1.00
228_K	284_L	1.349	1.00
212_R	216_Q	1.347	1.00
276_I	293_Y	1.337	1.00
203_G	250_Y	1.322	1.00
25_D	57_E	1.299	1.00
15_I	99_F	1.290	1.00
34_R	38_L	1.290	1.00
98_P	109_L	1.247	1.00
214_T	291_T	1.246	1.00
269_D	277_E	1.238	1.00
104_R	107_E	1.235	1.00
260_M	266_T	1.231	1.00
36_E	39_K	1.229	1.00
14_Y	127_S	1.228	1.00
84_E	87_K	1.223	1.00
162_E	165_S	1.218	1.00
199_Q	299_Y	1.207	1.00
277_E	281_R	1.202	1.00
44_V	134_E	1.191	1.00
290_E	294_A	1.188	1.00
4_L	70_V	1.179	1.00
192_A	256_M	1.176	1.00
11_V	73_A	1.174	1.00
4_L	29_L	1.168	1.00
291_T	295_N	1.158	1.00
216_Q	220_G	1.156	1.00
80_G	84_E	1.141	1.00
80_G	111_A	1.140	1.00
30_V	38_L	1.137	1.00
212_R	246_T	1.135	1.00
34_R	132_K	1.132	1.00
162_E	166_G	1.132	1.00
157_I	173_I	1.126	1.00
96_I	113_F	1.115	1.00
95_V	156_R	1.114	1.00
218_L	289_L	1.113	1.00
22_K	167_V	1.112	1.00
122_L	181_I	1.111	1.00
193_G	272_H	1.109	1.00
76_A	270_H	1.108	1.00
95_V	119_L	1.105	1.00
27_T	67_F	1.091	1.00
131_N	134_E	1.086	1.00
5_V	71_I	1.084	1.00
228_K	282_L	1.083	1.00
45_I	52_V	1.080	1.00
47_S	50_G	1.079	1.00
13_G	43_L	1.078	1.00
39_K	58_L	1.073	1.00
103_Y	274_F	1.062	1.00
187_F	245_M	1.059	1.00
286_A	289_L	1.058	1.00
110_F	115_K	1.056	1.00
81_Q	85_D	1.055	1.00
79_L	98_P	1.052	1.00
239_E	243_R	1.049	1.00
222_I	275_L	1.047	1.00
81_Q	84_E	1.045	1.00
184_K	255_S	1.043	1.00
194_I	205_I	1.041	1.00
155_E	158_R	1.040	1.00
200_R	204_P	1.040	1.00
274_F	278_K	1.034	1.00
123_C	144_F	1.033	1.00
229_E	281_R	1.033	1.00
148_E	151_G	1.028	1.00
284_L	287_P	1.027	1.00
125_I	137_H	1.027	1.00
161_E	173_I	1.025	1.00
64_T	67_F	1.008	1.00
201_P	251_H	1.007	1.00
274_F	277_E	1.005	1.00
206_L	246_T	1.000	1.00
288_V	291_T	0.994	1.00
279_A	284_L	0.987	1.00
234_D	237_L	0.986	1.00
15_I	123_C	0.984	1.00
9_G	12_G	0.984	1.00
97_I	121_G	0.981	1.00
69_V	95_V	0.976	1.00
72_I	96_I	0.976	1.00
197_L	299_Y	0.960	1.00
154_T	158_R	0.959	1.00
183_K	234_D	0.956	1.00
11_V	123_C	0.954	1.00
95_V	160_L	0.952	1.00
192_A	255_S	0.947	1.00
148_E	157_I	0.938	1.00
114_S	118_V	0.935	1.00
236_A	240_E	0.933	1.00
185_Y	271_L	0.932	1.00
179_K	183_K	0.932	1.00
198_F	295_N	0.930	1.00
75_K	184_K	0.929	1.00
214_T	288_V	0.923	1.00
202_L	252_M	0.923	1.00
8_A	16_G	0.920	1.00
273_G	293_Y	0.907	0.99
6_V	70_V	0.905	0.99
101_N	184_K	0.891	0.99
130_D	134_E	0.890	0.99
128_A	138_T	0.888	0.99
3_F	24_N	0.887	0.99
84_E	88_P	0.880	0.99
75_K	259_D	0.875	0.99
128_A	258_R	0.873	0.99
192_A	258_R	0.873	0.99
5_V	16_G	0.871	0.99
30_V	35_A	0.870	0.99
17_G	45_I	0.869	0.99
195_T	205_I	0.866	0.99
106_Y	120_G	0.860	0.99
100_L	105_H	0.852	0.99
279_A	285_A	0.848	0.99
202_L	249_S	0.847	0.99
165_S	171_V	0.845	0.99
78_S	81_Q	0.843	0.99
192_A	196_T	0.840	0.99
272_H	275_L	0.840	0.99
194_I	215_A	0.839	0.99
159_A	162_E	0.838	0.99
104_R	277_E	0.833	0.99
199_Q	260_M	0.832	0.99
66_Q	94_S	0.831	0.99
98_P	105_H	0.830	0.99
279_A	287_P	0.826	0.99
76_A	105_H	0.825	0.99
20_S	57_E	0.825	0.99
146_F	161_E	0.823	0.99
269_D	273_G	0.821	0.99
38_L	42_G	0.815	0.99
198_F	214_T	0.814	0.99
145_V	180_D	0.814	0.99
187_F	191_Q	0.814	0.99
217_T	290_E	0.810	0.99
109_L	118_V	0.808	0.99
71_I	99_F	0.805	0.99
280_K	286_A	0.805	0.99
188_I	271_L	0.804	0.99
70_V	90_I	0.804	0.99
4_L	89_F	0.804	0.99
273_G	277_E	0.803	0.99
107_E	111_A	0.801	0.99
225_V	279_A	0.800	0.99
204_P	207_A	0.799	0.99
8_A	13_G	0.797	0.99
110_F	114_S	0.795	0.99
2_K	66_Q	0.794	0.99
5_V	26_V	0.790	0.99
6_V	74_S	0.789	0.99
277_E	280_K	0.789	0.99
121_G	144_F	0.789	0.99
259_D	267_E	0.783	0.98
128_A	136_H	0.783	0.98
75_K	267_E	0.783	0.98
70_V	96_I	0.780	0.98
24_N	163_A	0.779	0.98
2_K	65_G	0.777	0.98
104_R	274_F	0.776	0.98
253_K	258_R	0.775	0.98
213_H	217_T	0.772	0.98
295_N	299_Y	0.768	0.98
258_R	262_N	0.767	0.98
190_A	219_I	0.765	0.98
77_Y	265_T	0.765	0.98
249_S	252_M	0.758	0.98
95_V	117_Q	0.758	0.98
72_I	98_P	0.756	0.98
185_Y	275_L	0.752	0.98
276_I	289_L	0.752	0.98
209_E	213_H	0.746	0.98
14_Y	125_I	0.746	0.98
41_T	134_E	0.740	0.98
27_T	59_I	0.739	0.98
139_S	142_H	0.739	0.98
191_Q	252_M	0.739	0.98
20_S	23_G	0.737	0.98
14_Y	137_H	0.736	0.98
28_F	56_P	0.736	0.98
224_T	227_R	0.736	0.98
127_S	135_I	0.733	0.98
110_F	149_W	0.733	0.98
151_G	154_T	0.732	0.98
35_A	58_L	0.732	0.98
102_G	184_K	0.732	0.98
34_R	129_L	0.730	0.98
46_H	130_D	0.729	0.98
259_D	264_Q	0.726	0.98
188_I	255_S	0.726	0.98
83_I	112_A	0.725	0.98
160_L	164_F	0.724	0.97
183_K	237_L	0.724	0.97
213_H	216_Q	0.720	0.97
227_R	232_P	0.719	0.97
179_K	231_V	0.719	0.97
188_I	258_R	0.718	0.97
291_T	294_A	0.717	0.97
222_I	225_V	0.715	0.97
192_A	271_L	0.713	0.97
38_L	133_G	0.712	0.97
41_T	44_V	0.709	0.97
106_Y	110_F	0.708	0.97
190_A	193_G	0.703	0.97
17_G	20_S	0.702	0.97
184_K	259_D	0.701	0.97
70_V	94_S	0.700	0.97
275_L	289_L	0.699	0.97
229_E	284_L	0.699	0.97
189_A	289_L	0.695	0.97
18_R	167_V	0.691	0.97
15_I	144_F	0.690	0.97
255_S	259_D	0.690	0.97
191_Q	202_L	0.687	0.97
155_E	159_A	0.685	0.96
220_G	224_T	0.678	0.96
67_F	70_V	0.677	0.96
2_K	68_D	0.676	0.96
145_V	172_I	0.674	0.96
99_F	123_C	0.674	0.96
82_V	86_V	0.673	0.96
186_L	238_E	0.672	0.96
83_I	109_L	0.671	0.96
98_P	106_Y	0.670	0.96
226_L	231_V	0.669	0.96
203_G	257_L	0.669	0.96
13_G	34_R	0.668	0.96
272_H	276_I	0.665	0.96
223_C	227_R	0.662	0.96
97_I	119_L	0.662	0.96
31_R	78_S	0.662	0.96
126_E	138_T	0.662	0.96
146_F	171_V	0.662	0.96
13_G	28_F	0.659	0.96
193_G	292_V	0.658	0.96
208_T	211_G	0.657	0.96
224_T	228_K	0.657	0.96
72_I	109_L	0.656	0.96
120_G	181_I	0.654	0.95
6_V	29_L	0.652	0.95
146_F	173_I	0.651	0.95
4_L	27_T	0.651	0.95
196_T	266_T	0.648	0.95
15_I	18_R	0.647	0.95
211_G	298_M	0.647	0.95
75_K	255_S	0.645	0.95
184_K	192_A	0.644	0.95
6_V	85_D	0.643	0.95
119_L	148_E	0.643	0.95
225_V	284_L	0.642	0.95
101_N	255_S	0.639	0.95
101_N	188_I	0.638	0.95
224_T	284_L	0.637	0.95
203_G	251_H	0.633	0.95
196_T	200_R	0.633	0.95
246_T	249_S	0.633	0.95
122_L	180_D	0.632	0.95
66_Q	93_E	0.627	0.94
75_K	101_N	0.627	0.94
101_N	267_E	0.626	0.94
82_V	85_D	0.625	0.94
268_G	297_Q	0.624	0.94
214_T	295_N	0.623	0.94
220_G	235_P	0.622	0.94
178_E	229_E	0.622	0.94
66_Q	91_H	0.622	0.94
256_M	266_T	0.617	0.94
189_A	271_L	0.617	0.94
242_F	246_T	0.615	0.94
194_I	218_L	0.614	0.94
158_R	173_I	0.613	0.94
207_A	250_Y	0.612	0.94
200_R	205_I	0.611	0.93
280_K	285_A	0.610	0.93
34_R	43_L	0.609	0.93
47_S	51_N	0.604	0.93
90_I	113_F	0.602	0.93
20_S	28_F	0.602	0.93
153_R	158_R	0.602	0.93
217_T	294_A	0.602	0.93
211_G	214_T	0.600	0.93
68_D	93_E	0.599	0.93
17_G	52_V	0.597	0.93
256_M	259_D	0.595	0.93
174_S	177_I	0.594	0.93
178_E	181_I	0.591	0.92
193_G	196_T	0.589	0.92
142_H	252_M	0.584	0.92
14_Y	18_R	0.582	0.92
74_S	78_S	0.582	0.92
109_L	113_F	0.580	0.92
74_S	79_L	0.579	0.92
15_I	71_I	0.577	0.91
126_E	252_M	0.575	0.91
143_R	170_E	0.575	0.91
42_G	56_P	0.575	0.91
245_M	248_M	0.575	0.91
205_I	215_A	0.574	0.91
191_Q	245_M	0.573	0.91
260_M	299_Y	0.571	0.91
185_Y	188_I	0.567	0.91
19_L	71_I	0.565	0.91
108_Q	111_A	0.565	0.91
9_G	101_N	0.564	0.90
31_R	35_A	0.562	0.90
34_R	37_Q	0.562	0.90
226_L	233_A	0.562	0.90
105_H	181_I	0.559	0.90
198_F	211_G	0.558	0.90
103_Y	185_Y	0.558	0.90
186_L	223_C	0.558	0.90
255_S	267_E	0.557	0.90
104_R	108_Q	0.554	0.90
75_K	192_A	0.554	0.90
224_T	285_A	0.554	0.90
129_L	135_I	0.554	0.90
2_K	27_T	0.553	0.90
72_I	82_V	0.552	0.90
33_K	37_Q	0.551	0.89
245_M	249_S	0.549	0.89
219_I	239_E	0.549	0.89
70_V	86_V	0.549	0.89
107_E	278_K	0.547	0.89
165_S	170_E	0.547	0.89
126_E	249_S	0.547	0.89
201_P	253_K	0.546	0.89
120_G	149_W	0.544	0.89
184_K	188_I	0.544	0.89
240_E	243_R	0.541	0.89
258_R	271_L	0.541	0.89
288_V	292_V	0.538	0.88
123_C	142_H	0.535	0.88
275_L	286_A	0.530	0.88
186_L	219_I	0.529	0.88
103_Y	181_I	0.528	0.87
5_V	28_F	0.527	0.87
120_G	177_I	0.527	0.87
193_G	296_L	0.527	0.87
125_I	142_H	0.526	0.87
256_M	271_L	0.526	0.87
4_L	64_T	0.524	0.87
187_F	252_M	0.522	0.87
220_G	238_E	0.522	0.87
195_T	257_L	0.521	0.87
29_L	67_F	0.520	0.87
52_V	56_P	0.520	0.87
105_H	109_L	0.518	0.86
184_K	267_E	0.517	0.86
11_V	125_I	0.514	0.86
276_I	279_A	0.514	0.86
161_E	171_V	0.514	0.86
14_Y	142_H	0.511	0.86
255_S	271_L	0.508	0.85
273_G	289_L	0.507	0.85
102_G	273_G	0.507	0.85
8_A	30_V	0.506	0.85
124_F	187_F	0.504	0.85
119_L	160_L	0.503	0.85
181_I	274_F	0.503	0.85
149_W	178_E	0.502	0.85
14_Y	45_I	0.500	0.84
239_E	242_F	0.500	0.84

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)
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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
3wfiA	2	0.9967	100	0.311	Contact Map
2ew2A	2	0.9967	100	0.326	Contact Map
3ghyA	2	0.9901	100	0.352	Contact Map
3hn2A	2	0.9868	100	0.367	Contact Map
3egoA	2	0.9505	100	0.368	Contact Map
2qytA	1	0.9109	100	0.369	Contact Map
3i83A	2	0.9868	100	0.373	Contact Map
3hwrA	2	0.9703	100	0.382	Contact Map
4ol9A	2	0.9538	100	0.394	Contact Map
1ks9A	1	0.9472	100	0.404	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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