YCBK - BACSU - GREMLIN Contacts

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

YCBK - Uncharacterized transporter YcbK

UniProt:	P42243	Sequences: MRAEEQSKIREAAAGTIFLLIGTVCFASKSIWIKWAYQMGAEPDAVLLYRQLLAVPLFWLIFLIYRPPMPDGKKKGDLWKACGAGVFCFFLSPLLDFIGLNHVSAMVERILLMSYPLFVFGFTACRDRKMSSIQDLFAVLAVMFGLFLALGGWNAELFQANMIGAVFILLSSAVYAGYLVLSGHLVHQIGGIRLNAYGMTAAGAAMMLYTGIKSAAGMNTPMAAYPLSMYGLFAVIAVVTTVIPFVLMLEGIKRIGAQRAAAISMAGPILTIFYGALFLGERLGLIQVIGCGGVFFVITGMEYRKLKTGKKE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	312 (276)
Sequences:	38730 (28075)
Seq/√Len:	1689.9

ECOLI - YIJE YICL YHBE YTFF EAMA RHTA YEDA RARD YDDG YIGM
BACSU - YCBK YXXF YETK YCXC YDED YVBV YOAV YWFM YDFC YBFH YYAM YRDR YDEK YOJE
HALSA - Q9HQ34 Q9HHP6 Q9HPI0
SULSO - Q97UX3 Q97X73 Q97UE8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
99_G	168_I	3.568	1.00
18_F	250_E	2.859	1.00
107_V	165_A	2.836	1.00
250_E	254_R	2.717	1.00
275_G	281_E	2.661	1.00
48_L	207_M	2.461	1.00
55_V	200_T	2.457	1.00
32_W	235_V	2.425	1.00
98_I	167_F	2.406	1.00
138_A	297_V	2.374	1.00
250_E	253_K	2.271	1.00
118_F	172_S	2.239	1.00
95_L	170_L	2.237	1.00
129_K	183_G	2.195	1.00
95_L	167_F	2.159	1.00
34_K	281_E	2.112	1.00
109_R	271_T	2.090	1.00
122_F	180_V	2.059	1.00
74_K	77_D	2.015	1.00
53_L	237_A	1.991	1.00
19_L	251_G	1.989	1.00
227_L	231_G	1.983	1.00
27_A	270_L	1.979	1.00
33_I	97_F	1.954	1.00
52_L	203_G	1.917	1.00
124_A	131_S	1.914	1.00
59_W	196_A	1.848	1.00
91_L	174_V	1.839	1.00
123_T	129_K	1.820	1.00
120_F	139_V	1.817	1.00
114_S	118_F	1.776	1.00
166_V	170_L	1.768	1.00
132_S	135_D	1.761	1.00
103_V	165_A	1.747	1.00
119_V	261_A	1.746	1.00
226_P	229_M	1.685	1.00
27_A	274_Y	1.684	1.00
77_D	188_Q	1.681	1.00
102_H	163_I	1.678	1.00
204_A	208_L	1.675	1.00
103_V	164_G	1.657	1.00
28_S	235_V	1.633	1.00
256_G	259_R	1.632	1.00
237_A	242_V	1.617	1.00
190_G	193_R	1.606	1.00
299_T	303_Y	1.597	1.00
95_L	174_V	1.585	1.00
55_V	203_G	1.582	1.00
60_L	63_L	1.577	1.00
142_V	265_M	1.576	1.00
118_F	176_A	1.571	1.00
24_V	270_L	1.534	1.00
25_C	239_V	1.524	1.00
208_L	211_G	1.520	1.00
284_G	287_Q	1.509	1.00
98_I	102_H	1.488	1.00
138_A	301_M	1.438	1.00
108_E	168_I	1.438	1.00
162_M	165_A	1.426	1.00
41_A	229_M	1.416	1.00
76_G	80_K	1.414	1.00
122_F	126_R	1.410	1.00
182_S	249_L	1.405	1.00
118_F	173_A	1.404	1.00
61_I	65_Y	1.403	1.00
22_G	251_G	1.386	1.00
59_W	63_L	1.385	1.00
48_L	203_G	1.382	1.00
39_M	229_M	1.381	1.00
285_L	289_I	1.364	1.00
76_G	79_W	1.347	1.00
36_A	46_V	1.338	1.00
98_I	101_N	1.315	1.00
79_W	83_G	1.305	1.00
105_A	275_G	1.305	1.00
106_M	272_I	1.299	1.00
103_V	107_V	1.297	1.00
75_K	79_W	1.292	1.00
54_A	199_M	1.292	1.00
56_P	60_L	1.283	1.00
138_A	300_G	1.280	1.00
123_T	127_D	1.277	1.00
288_V	292_G	1.276	1.00
133_I	137_F	1.275	1.00
274_Y	278_F	1.274	1.00
31_I	274_Y	1.268	1.00
18_F	247_L	1.267	1.00
145_G	290_G	1.260	1.00
35_W	232_L	1.260	1.00
60_L	64_I	1.260	1.00
148_L	293_G	1.258	1.00
142_V	297_V	1.258	1.00
26_F	244_P	1.248	1.00
176_A	180_V	1.244	1.00
57_L	242_V	1.242	1.00
102_H	167_F	1.237	1.00
80_K	181_L	1.234	1.00
75_K	78_L	1.232	1.00
270_L	274_Y	1.230	1.00
104_S	107_V	1.229	1.00
292_G	296_F	1.223	1.00
136_L	140_L	1.222	1.00
148_L	286_I	1.220	1.00
46_V	236_I	1.219	1.00
16_T	263_I	1.209	1.00
227_L	230_Y	1.209	1.00
184_H	188_Q	1.200	1.00
283_L	288_V	1.188	1.00
231_G	235_V	1.176	1.00
134_Q	300_G	1.171	1.00
162_M	166_V	1.168	1.00
266_A	270_L	1.167	1.00
140_L	144_F	1.160	1.00
183_G	256_G	1.148	1.00
77_D	80_K	1.146	1.00
205_A	208_L	1.128	1.00
110_I	291_C	1.125	1.00
39_M	226_P	1.125	1.00
163_I	167_F	1.125	1.00
42_E	45_A	1.124	1.00
149_A	290_G	1.119	1.00
228_S	231_G	1.113	1.00
34_K	38_Q	1.110	1.00
100_L	108_E	1.106	1.00
17_I	21_I	1.099	1.00
122_F	177_G	1.097	1.00
44_D	209_Y	1.097	1.00
228_S	232_L	1.095	1.00
184_H	187_H	1.087	1.00
102_H	161_N	1.083	1.00
183_G	187_H	1.079	1.00
145_G	294_V	1.072	1.00
119_V	257_A	1.071	1.00
48_L	52_L	1.069	1.00
82_C	201_A	1.067	1.00
48_L	210_T	1.066	1.00
32_W	232_L	1.062	1.00
252_I	260_A	1.055	1.00
86_V	205_A	1.052	1.00
124_A	130_M	1.051	1.00
133_I	136_L	1.047	1.00
90_F	205_A	1.045	1.00
21_I	247_L	1.044	1.00
50_R	241_T	1.043	1.00
102_H	164_G	1.039	1.00
83_G	181_L	1.033	1.00
22_G	26_F	1.032	1.00
127_D	180_V	1.031	1.00
90_F	206_M	1.022	1.00
96_D	100_L	1.021	1.00
103_V	168_I	1.021	1.00
129_K	135_D	1.018	1.00
55_V	196_A	1.018	1.00
163_I	166_V	1.015	1.00
47_L	97_F	1.013	1.00
183_G	257_A	1.007	1.00
119_V	179_L	1.003	1.00
80_K	84_A	1.003	1.00
25_C	247_L	1.002	1.00
28_S	274_Y	1.001	1.00
15_G	251_G	1.000	1.00
22_G	247_L	1.000	1.00
122_F	176_A	1.000	1.00
79_W	82_C	0.998	1.00
231_G	234_A	0.994	1.00
105_A	279_L	0.992	1.00
209_Y	213_K	0.989	1.00
114_S	146_L	0.989	1.00
82_C	85_G	0.985	1.00
26_F	248_M	0.985	1.00
111_L	172_S	0.982	1.00
120_F	131_S	0.981	1.00
67_P	190_G	0.978	1.00
131_S	136_L	0.970	1.00
239_V	243_I	0.964	1.00
36_A	229_M	0.963	1.00
235_V	239_V	0.959	1.00
151_G	284_G	0.944	1.00
111_L	165_A	0.943	1.00
234_A	237_A	0.941	1.00
125_C	128_R	0.937	1.00
33_I	100_L	0.935	1.00
36_A	232_L	0.930	1.00
285_L	288_V	0.929	1.00
122_F	173_A	0.924	1.00
51_Q	202_A	0.922	1.00
132_S	136_L	0.920	1.00
252_I	256_G	0.920	1.00
63_L	66_R	0.917	1.00
15_G	254_R	0.916	1.00
141_A	297_V	0.914	1.00
63_L	67_P	0.913	1.00
122_F	125_C	0.912	1.00
172_S	176_A	0.906	1.00
111_L	168_I	0.904	1.00
31_I	278_F	0.901	1.00
43_P	47_L	0.897	1.00
77_D	189_I	0.896	1.00
23_T	27_A	0.895	1.00
44_D	94_L	0.894	1.00
147_F	151_G	0.890	1.00
164_G	168_I	0.888	1.00
105_A	281_E	0.886	1.00
45_A	210_T	0.883	1.00
88_C	178_Y	0.882	1.00
230_Y	234_A	0.880	1.00
80_K	185_L	0.879	1.00
119_V	176_A	0.878	1.00
52_L	207_M	0.878	1.00
134_Q	303_Y	0.878	1.00
130_M	134_Q	0.874	1.00
83_G	86_V	0.866	1.00
89_F	178_Y	0.863	1.00
255_I	260_A	0.863	1.00
85_G	201_A	0.858	1.00
67_P	70_P	0.854	1.00
256_G	260_A	0.853	1.00
23_T	270_L	0.851	1.00
208_L	212_I	0.849	1.00
88_C	177_G	0.843	1.00
78_L	201_A	0.840	1.00
57_L	238_V	0.836	1.00
110_I	147_F	0.826	1.00
80_K	184_H	0.823	1.00
255_I	259_R	0.821	1.00
31_I	275_G	0.818	1.00
33_I	37_Y	0.816	1.00
251_G	260_A	0.813	1.00
276_A	283_L	0.813	1.00
159_Q	162_M	0.811	1.00
161_N	165_A	0.807	1.00
269_I	291_C	0.803	1.00
226_P	230_Y	0.801	1.00
94_L	98_I	0.798	1.00
272_I	283_L	0.790	1.00
211_G	214_S	0.790	1.00
20_L	270_L	0.785	1.00
144_F	148_L	0.782	1.00
146_L	150_L	0.780	1.00
130_M	133_I	0.780	1.00
59_W	200_T	0.779	1.00
291_C	295_F	0.774	1.00
286_I	289_I	0.770	1.00
148_L	289_I	0.770	1.00
144_F	293_G	0.768	1.00
200_T	204_A	0.766	1.00
233_F	237_A	0.764	1.00
57_L	60_L	0.763	1.00
201_A	204_A	0.761	1.00
90_F	94_L	0.761	1.00
177_G	181_L	0.753	1.00
49_Y	53_L	0.751	1.00
47_L	206_M	0.750	1.00
19_L	263_I	0.749	1.00
203_G	207_M	0.749	1.00
81_A	85_G	0.748	1.00
66_R	69_M	0.745	1.00
121_G	125_C	0.743	1.00
225_Y	229_M	0.743	1.00
297_V	301_M	0.738	1.00
266_A	269_I	0.738	1.00
78_L	82_C	0.737	1.00
145_G	297_V	0.736	1.00
225_Y	230_Y	0.736	1.00
168_I	172_S	0.735	1.00
55_V	59_W	0.734	1.00
272_I	291_C	0.731	1.00
137_F	141_A	0.729	1.00
63_L	68_P	0.726	1.00
209_Y	212_I	0.722	1.00
92_S	174_V	0.722	1.00
151_G	154_N	0.722	1.00
212_I	215_A	0.718	1.00
189_I	194_L	0.718	1.00
289_I	293_G	0.716	1.00
82_C	86_V	0.715	1.00
243_I	247_L	0.715	1.00
119_V	180_V	0.705	1.00
197_Y	201_A	0.704	1.00
91_L	95_L	0.704	1.00
117_L	142_V	0.700	1.00
62_F	66_R	0.698	1.00
70_P	73_K	0.697	1.00
124_A	128_R	0.696	1.00
23_T	266_A	0.696	1.00
175_Y	179_L	0.694	1.00
19_L	255_I	0.694	1.00
99_G	164_G	0.693	1.00
52_L	56_P	0.692	1.00
196_A	200_T	0.691	1.00
120_F	135_D	0.690	1.00
45_A	49_Y	0.688	1.00
229_M	232_L	0.686	1.00
114_S	117_L	0.685	1.00
16_T	259_R	0.683	1.00
58_F	242_V	0.679	1.00
232_L	235_V	0.677	1.00
31_I	105_A	0.675	1.00
61_I	192_I	0.673	1.00
92_S	178_Y	0.672	1.00
118_F	169_L	0.672	1.00
111_L	169_L	0.670	1.00
234_A	238_V	0.670	1.00
296_F	300_G	0.670	1.00
213_K	216_A	0.669	1.00
276_A	282_R	0.663	1.00
204_A	207_M	0.662	1.00
89_F	245_F	0.661	1.00
103_V	108_E	0.660	1.00
88_C	174_V	0.659	1.00
195_N	198_G	0.654	1.00
65_Y	190_G	0.653	1.00
35_W	279_L	0.652	1.00
65_Y	68_P	0.651	1.00
80_K	83_G	0.646	1.00
62_F	196_A	0.643	1.00
30_S	96_D	0.642	1.00
141_A	300_G	0.642	1.00
57_L	237_A	0.642	1.00
129_K	258_Q	0.640	1.00
201_A	205_A	0.640	1.00
283_L	287_Q	0.639	1.00
135_D	256_G	0.636	1.00
175_Y	248_M	0.631	1.00
282_R	286_I	0.631	1.00
131_S	135_D	0.626	1.00
275_G	279_L	0.625	1.00
64_I	68_P	0.624	1.00
81_A	189_I	0.623	1.00
99_G	108_E	0.623	1.00
25_C	240_T	0.621	1.00
210_T	214_S	0.620	1.00
272_I	276_A	0.617	1.00
74_K	78_L	0.615	1.00
193_R	197_Y	0.614	1.00
64_I	67_P	0.608	1.00
246_V	250_E	0.608	1.00
195_N	249_L	0.607	1.00
61_I	64_I	0.604	1.00
85_G	90_F	0.604	1.00
25_C	244_P	0.603	1.00
53_L	57_L	0.600	1.00
120_F	124_A	0.598	1.00
65_Y	69_M	0.597	1.00
262_A	301_M	0.593	1.00
113_M	116_P	0.592	1.00
200_T	203_G	0.590	1.00
191_G	195_N	0.588	1.00
178_Y	249_L	0.586	1.00
287_Q	291_C	0.585	1.00
90_F	209_Y	0.584	1.00
96_D	108_E	0.584	1.00
30_S	109_R	0.582	1.00
74_K	79_W	0.579	1.00
114_S	172_S	0.579	1.00
41_A	46_V	0.578	1.00
116_P	265_M	0.576	1.00
167_F	170_L	0.574	1.00
202_A	206_M	0.574	1.00
96_D	171_S	0.573	1.00
21_I	25_C	0.572	1.00
65_Y	192_I	0.570	1.00
235_V	238_V	0.570	1.00
88_C	181_L	0.569	1.00
127_D	184_H	0.568	1.00
211_G	215_A	0.567	1.00
273_F	277_L	0.559	1.00
274_Y	277_L	0.558	1.00
54_A	242_V	0.558	1.00
97_F	101_N	0.557	1.00
150_L	165_A	0.557	1.00
113_M	172_S	0.557	1.00
77_D	81_A	0.555	1.00
121_G	139_V	0.554	1.00
89_F	198_G	0.553	1.00
110_I	149_A	0.551	1.00
78_L	81_A	0.549	1.00
277_L	280_G	0.549	1.00
113_M	146_L	0.548	1.00
81_A	194_L	0.547	1.00
197_Y	200_T	0.547	1.00
284_G	288_V	0.547	1.00
15_G	255_I	0.546	1.00
298_I	301_M	0.543	1.00
89_F	202_A	0.541	1.00
126_R	177_G	0.539	1.00
110_I	150_L	0.535	1.00
179_L	248_M	0.534	1.00
265_M	298_I	0.534	1.00
29_K	240_T	0.532	1.00
20_L	23_T	0.532	1.00
23_T	267_G	0.532	1.00
42_E	214_S	0.527	1.00
95_L	171_S	0.526	1.00
159_Q	163_I	0.526	1.00
29_K	97_F	0.525	1.00
247_L	250_E	0.524	1.00
19_L	248_M	0.523	1.00
160_A	163_I	0.522	1.00
207_M	211_G	0.521	1.00
99_G	103_V	0.520	1.00
273_F	276_A	0.520	1.00
276_A	288_V	0.519	1.00
109_R	113_M	0.515	1.00
264_S	267_G	0.515	1.00
53_L	56_P	0.514	1.00
127_D	183_G	0.514	1.00
16_T	20_L	0.513	1.00
49_Y	233_F	0.512	1.00
173_A	177_G	0.511	1.00
92_S	96_D	0.511	1.00
282_R	287_Q	0.509	1.00
56_P	59_W	0.508	1.00
44_D	213_K	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
2i68A	2	0.2468	98.7	0.77	Contact Map
3b5dA	2	0.3237	98.1	0.808	Contact Map
4tphA	2	0.8814	26.2	0.934	Contact Map
1pw4A	1	0.8526	24.8	0.934	Contact Map
2gfpA	2	0.7628	22.2	0.936	Contact Map
4he8J	1	0.5032	21.1	0.937	Contact Map
4j05A	3	0.9199	21.1	0.937	Contact Map
4pgrA	1	0.6442	18.9	0.938	Contact Map
3o7qA	1	0.7756	17	0.939	Contact Map
4pypA	1	0.9038	16.9	0.939	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 0.0098 seconds.