YDAK - BACSU - GREMLIN Contacts

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

YDAK - Uncharacterized membrane protein YdaK

UniProt:	P96585	Sequences: MKISFSESQKLFAYFSGLIAALSLFIYYVSAQQSEGALILCITFGVIAAGIWFGPIYALAVTLIVLFVLGTLMMFFQTGQTSLFPAEEGLRMLVVWGIALLLFSFISGRIHDITAELRRSMTRLQSEIKSYVAVDRVTGFDNKQRMKLELSEEIKRAERYGNSFVFLLLHMHYFKEFKSLYGEKETDRLFQYVGQQIRTSVRETDKKFRPSDERIGIVLTHTPAEHMPAVLTKLKKQLDTYQLENGKYVSLTFHVCYLPYRNDIQTADQFLEELENEMMMNEL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	283 (245)
Sequences:	14272 (12971)
Seq/√Len:	828.7

ECOLI - YEAI YCDT YEGE ADRA YEDQ YDAM YNEF DOSC YEAJ DOSP YFEA YFIN YEAP YFGF GMR YLIF CSRD YHJK YLIE YLAB YDEH RTN YJCC
BACSU - YDAK YTRP YHCK YKOW

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
130_S	134_V	3.622	1.00
202_R	205_D	3.586	1.00
167_L	231_L	3.244	1.00
141_D	145_R	3.148	1.00
150_L	267_A	3.138	1.00
165_V	259_P	2.935	1.00
146_M	216_G	2.877	1.00
140_F	194_G	2.797	1.00
167_L	255_V	2.776	1.00
171_M	193_V	2.392	1.00
254_H	281_N	2.390	1.00
165_V	227_M	2.365	1.00
210_P	216_G	2.308	1.00
121_M	125_Q	2.290	1.00
146_M	208_F	2.215	1.00
140_F	207_K	2.193	1.00
172_H	254_H	2.163	1.00
196_Q	241_Y	2.157	1.00
232_T	235_K	2.099	1.00
145_R	149_E	2.080	1.00
125_Q	128_I	2.066	1.00
188_R	191_Q	2.025	1.00
129_K	133_A	2.022	1.00
169_L	253_F	1.983	1.00
272_E	276_N	1.981	1.00
153_E	156_R	1.970	1.00
184_K	272_E	1.954	1.00
149_E	152_E	1.905	1.00
197_I	207_K	1.866	1.00
169_L	255_V	1.803	1.00
189_L	251_L	1.700	1.00
200_S	237_Q	1.695	1.00
261_R	264_I	1.694	1.00
138_T	190_F	1.690	1.00
219_L	230_V	1.670	1.00
168_L	210_P	1.666	1.00
223_P	226_H	1.656	1.00
149_E	208_F	1.647	1.00
177_F	249_V	1.641	1.00
114_T	117_L	1.612	1.00
266_T	269_Q	1.612	1.00
238_L	253_F	1.609	1.00
200_S	233_K	1.609	1.00
185_E	188_R	1.607	1.00
264_I	273_E	1.601	1.00
117_L	121_M	1.598	1.00
201_V	207_K	1.592	1.00
193_V	238_L	1.585	1.00
192_Y	195_Q	1.576	1.00
177_F	189_L	1.551	1.00
133_A	148_L	1.549	1.00
164_F	270_F	1.537	1.00
164_F	260_Y	1.523	1.00
210_P	271_L	1.509	1.00
167_L	219_L	1.486	1.00
141_D	206_K	1.483	1.00
192_Y	196_Q	1.478	1.00
201_V	217_I	1.468	1.00
136_R	144_Q	1.456	1.00
149_E	206_K	1.455	1.00
143_K	187_D	1.449	1.00
149_E	153_E	1.448	1.00
235_K	239_D	1.439	1.00
133_A	145_R	1.429	1.00
168_L	278_M	1.427	1.00
213_E	252_T	1.395	1.00
127_E	131_Y	1.379	1.00
162_N	221_H	1.377	1.00
118_R	121_M	1.376	1.00
121_M	124_L	1.370	1.00
230_V	233_K	1.368	1.00
124_L	127_E	1.362	1.00
145_R	148_L	1.341	1.00
188_R	192_Y	1.341	1.00
143_K	147_K	1.339	1.00
260_Y	270_F	1.333	1.00
168_L	271_L	1.328	1.00
228_P	232_T	1.323	1.00
192_Y	241_Y	1.321	1.00
131_Y	144_Q	1.315	1.00
273_E	277_E	1.299	1.00
171_M	253_F	1.289	1.00
173_Y	176_E	1.286	1.00
173_Y	213_E	1.280	1.00
153_E	220_T	1.279	1.00
192_Y	242_Q	1.278	1.00
232_T	236_K	1.276	1.00
175_K	179_S	1.267	1.00
174_F	190_F	1.252	1.00
196_Q	242_Q	1.246	1.00
195_Q	198_R	1.236	1.00
178_K	186_T	1.207	1.00
114_T	118_R	1.197	1.00
193_V	197_I	1.192	1.00
145_R	208_F	1.188	1.00
185_E	244_E	1.178	1.00
194_G	207_K	1.170	1.00
147_K	268_D	1.156	1.00
189_L	213_E	1.155	1.00
235_K	255_V	1.144	1.00
191_Q	195_Q	1.143	1.00
169_L	197_I	1.140	1.00
145_R	206_K	1.139	1.00
265_Q	273_E	1.137	1.00
133_A	141_D	1.133	1.00
277_E	281_N	1.132	1.00
258_L	270_F	1.132	1.00
236_K	240_T	1.128	1.00
141_D	208_F	1.127	1.00
147_K	151_S	1.125	1.00
176_E	180_L	1.123	1.00
258_L	274_L	1.115	1.00
151_S	267_A	1.108	1.00
179_S	279_M	1.108	1.00
146_M	150_L	1.103	1.00
122_T	125_Q	1.097	1.00
227_M	231_L	1.097	1.00
237_Q	240_T	1.094	1.00
231_L	255_V	1.086	1.00
199_T	237_Q	1.081	1.00
201_V	205_D	1.057	1.00
213_E	281_N	1.053	1.00
125_Q	129_K	1.048	1.00
117_L	122_T	1.047	1.00
227_M	257_Y	1.031	1.00
224_A	259_P	1.026	1.00
168_L	274_L	1.019	1.00
201_V	234_L	1.016	1.00
269_Q	272_E	1.013	1.00
169_L	217_I	1.013	1.00
134_V	141_D	1.012	1.00
150_L	218_V	1.004	1.00
214_R	275_E	1.002	1.00
193_V	253_F	0.997	1.00
163_S	262_N	0.990	1.00
267_A	271_L	0.987	1.00
166_F	271_L	0.984	1.00
275_E	279_M	0.983	1.00
231_L	257_Y	0.978	1.00
118_R	122_T	0.977	1.00
151_S	155_K	0.977	1.00
156_R	220_T	0.976	1.00
146_M	218_V	0.960	1.00
54_G	58_A	0.956	1.00
184_K	188_R	0.953	1.00
183_E	275_E	0.949	1.00
222_T	226_H	0.946	1.00
216_G	271_L	0.942	1.00
261_R	273_E	0.938	1.00
258_L	273_E	0.935	1.00
258_L	277_E	0.932	1.00
205_D	230_V	0.925	1.00
201_V	230_V	0.924	1.00
164_F	218_V	0.918	1.00
175_K	279_M	0.910	1.00
212_D	279_M	0.910	1.00
236_K	239_D	0.908	1.00
127_E	130_S	0.903	1.00
196_Q	237_Q	0.900	1.00
191_Q	194_G	0.894	1.00
115_A	119_R	0.894	1.00
167_L	257_Y	0.888	1.00
244_E	247_K	0.882	1.00
153_E	164_F	0.879	1.00
119_R	122_T	0.877	1.00
207_K	217_I	0.876	1.00
54_G	57_Y	0.871	1.00
117_L	120_S	0.856	1.00
273_E	276_N	0.854	1.00
170_H	213_E	0.853	1.00
166_F	270_F	0.846	1.00
183_E	279_M	0.844	1.00
126_S	129_K	0.842	1.00
224_A	228_P	0.827	1.00
165_V	257_Y	0.825	1.00
193_V	251_L	0.819	1.00
167_L	217_I	0.811	1.00
242_Q	250_S	0.810	1.00
178_K	212_D	0.808	1.00
136_R	147_K	0.801	1.00
148_L	152_E	0.800	1.00
231_L	235_K	0.798	1.00
50_G	54_G	0.797	1.00
197_I	217_I	0.797	1.00
211_S	279_M	0.794	1.00
115_A	118_R	0.790	1.00
195_Q	199_T	0.788	1.00
269_Q	273_E	0.788	1.00
160_Y	221_H	0.785	1.00
208_F	216_G	0.781	1.00
137_V	190_F	0.776	1.00
238_L	242_Q	0.773	1.00
188_R	245_N	0.772	1.00
150_L	154_I	0.766	1.00
177_F	185_E	0.766	1.00
211_S	214_R	0.765	1.00
219_L	227_M	0.764	1.00
244_E	249_V	0.764	1.00
265_Q	269_Q	0.761	1.00
192_Y	243_L	0.759	1.00
185_E	249_V	0.755	1.00
181_Y	249_V	0.751	1.00
184_K	268_D	0.751	1.00
179_S	275_E	0.748	1.00
261_R	265_Q	0.748	1.00
125_Q	131_Y	0.748	1.00
278_M	281_N	0.744	1.00
128_I	131_Y	0.738	1.00
133_A	144_Q	0.735	1.00
139_G	191_Q	0.734	1.00
122_T	126_S	0.732	1.00
276_N	280_M	0.730	1.00
176_E	213_E	0.728	1.00
77_Q	81_T	0.726	1.00
132_V	142_N	0.716	1.00
226_H	229_A	0.716	1.00
181_Y	185_E	0.714	1.00
137_V	143_K	0.709	1.00
174_F	213_E	0.707	1.00
124_L	128_I	0.705	1.00
172_H	252_T	0.703	1.00
156_R	160_Y	0.702	1.00
166_F	216_G	0.701	1.00
130_S	139_G	0.701	1.00
137_V	191_Q	0.700	1.00
157_A	164_F	0.698	1.00
171_M	252_T	0.697	1.00
175_K	275_E	0.695	1.00
108_G	111_H	0.690	1.00
202_R	233_K	0.685	1.00
95_V	98_I	0.682	1.00
154_I	267_A	0.681	1.00
194_G	197_I	0.680	1.00
159_R	202_R	0.680	1.00
52_W	56_I	0.678	1.00
153_E	218_V	0.678	1.00
146_M	210_P	0.677	1.00
124_L	131_Y	0.676	1.00
166_F	274_L	0.676	1.00
114_T	119_R	0.674	1.00
104_S	108_G	0.671	1.00
228_P	257_Y	0.666	1.00
205_D	219_L	0.664	1.00
243_L	248_Y	0.664	1.00
109_R	113_I	0.664	1.00
189_L	242_Q	0.663	1.00
120_S	123_R	0.659	1.00
168_L	216_G	0.659	1.00
107_S	111_H	0.659	1.00
170_H	282_E	0.657	1.00
147_K	150_L	0.655	1.00
117_L	125_Q	0.653	1.00
143_K	210_P	0.652	1.00
179_S	214_R	0.651	1.00
238_L	251_L	0.648	1.00
119_R	123_R	0.646	1.00
174_F	281_N	0.646	1.00
170_H	178_K	0.644	1.00
172_H	213_E	0.643	1.00
229_A	233_K	0.642	1.00
235_K	281_N	0.641	1.00
170_H	279_M	0.641	1.00
202_R	230_V	0.636	1.00
196_Q	200_S	0.634	1.00
118_R	125_Q	0.633	1.00
206_K	218_V	0.630	1.00
205_D	233_K	0.628	1.00
268_D	272_E	0.627	1.00
147_K	208_F	0.625	1.00
53_F	57_Y	0.624	1.00
91_R	95_V	0.622	1.00
214_R	279_M	0.619	1.00
158_E	260_Y	0.616	1.00
149_E	218_V	0.614	1.00
175_K	214_R	0.613	1.00
163_S	259_P	0.610	1.00
197_I	234_L	0.608	1.00
134_V	198_R	0.607	1.00
123_R	127_E	0.605	1.00
76_F	79_G	0.604	1.00
169_L	207_K	0.603	1.00
157_A	260_Y	0.603	1.00
171_M	174_F	0.603	1.00
175_K	178_K	0.602	1.00
128_I	132_V	0.601	1.00
144_Q	148_L	0.599	1.00
90_L	93_L	0.599	1.00
170_H	183_E	0.599	1.00
140_F	208_F	0.597	1.00
128_I	133_A	0.596	1.00
172_H	278_M	0.595	1.00
175_K	183_E	0.594	1.00
41_C	44_F	0.590	1.00
277_E	280_M	0.590	1.00
226_H	230_V	0.590	1.00
198_R	207_K	0.589	1.00
114_T	121_M	0.589	1.00
134_V	145_R	0.588	1.00
51_I	55_P	0.588	1.00
211_S	275_E	0.584	1.00
225_E	228_P	0.583	1.00
51_I	54_G	0.583	1.00
165_V	219_L	0.583	1.00
116_E	119_R	0.582	1.00
146_M	271_L	0.576	1.00
173_Y	278_M	0.576	1.00
239_D	252_T	0.575	1.00
197_I	215_I	0.574	1.00
263_D	273_E	0.572	1.00
159_R	204_T	0.569	1.00
131_Y	136_R	0.569	1.00
256_C	274_L	0.569	1.00
197_I	201_V	0.567	1.00
227_M	259_P	0.565	1.00
140_F	197_I	0.565	1.00
147_K	271_L	0.558	1.00
154_I	260_Y	0.552	1.00
77_Q	80_Q	0.550	1.00
102_L	106_I	0.550	1.00
163_S	223_P	0.549	1.00
231_L	253_F	0.546	1.00
67_F	71_T	0.545	1.00
173_Y	251_L	0.544	1.00
147_K	267_A	0.540	1.00
217_I	234_L	0.540	1.00
241_Y	244_E	0.537	1.00
150_L	164_F	0.537	1.00
154_I	158_E	0.535	1.00
213_E	279_M	0.534	1.00
75_F	78_T	0.532	1.00
156_R	159_R	0.532	1.00
172_H	281_N	0.530	1.00
107_S	110_I	0.530	1.00
231_L	281_N	0.530	1.00
181_Y	247_K	0.530	1.00
233_K	237_Q	0.529	1.00
99_A	106_I	0.529	1.00
106_I	110_I	0.529	1.00
95_V	99_A	0.527	1.00
230_V	234_L	0.527	1.00
130_S	133_A	0.526	1.00
155_K	158_E	0.526	1.00
165_V	231_L	0.525	1.00
69_L	73_M	0.524	1.00
171_M	190_F	0.523	1.00
146_M	267_A	0.521	1.00
239_D	250_S	0.521	1.00
105_F	109_R	0.521	1.00
134_V	140_F	0.521	1.00
144_Q	147_K	0.521	1.00
158_E	265_Q	0.519	1.00
105_F	108_G	0.518	1.00
224_A	227_M	0.517	1.00
40_L	44_F	0.516	1.00
200_S	205_D	0.515	1.00
38_L	42_I	0.513	1.00
178_K	187_D	0.512	1.00
174_F	189_L	0.510	1.00
173_Y	252_T	0.507	1.00
210_P	213_E	0.507	1.00
200_S	230_V	0.506	1.00
183_E	213_E	0.505	1.00
96_W	99_A	0.503	1.00
89_G	95_V	0.503	1.00
157_A	162_N	0.503	1.00
89_G	92_M	0.502	1.00
48_A	52_W	0.502	1.00
189_L	192_Y	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
1w25A	2	0.7986	100	0.362	Contact Map
4j40A	2	0	100	0.372	Contact Map
3ezuA	2	0.9364	100	0.377	Contact Map
3pjxA	1	0.5901	100	0.386	Contact Map
4rnhA	2	0.5194	100	0.391	Contact Map
4ymeA	1	0.5371	100	0.399	Contact Map
3ignA	1	0.5477	100	0.4	Contact Map
3mtkA	2	0.523	100	0.414	Contact Map
3i5cA	2	0.629	100	0.423	Contact Map
3hvaA	1	0.5406	100	0.428	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.