YGHX - ECOLI - GREMLIN Contacts

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YGHX - Putative uncharacterized protein YghX

UniProt:	Q7DFU6	Sequences: MTITLTGKSRNVSSSTLRRSAVGGMTALALFDLLKPNYALATQVEFTDPEIVAEYITYPSPNGHGEVRGYLVKPAKMSGKTPAVVVVHENRGLNPYIEDVARRVAKAGYIALAPDGLSSVGGYPGNDDKGRELQQQVDPTNLMNDFFAAIEFMQRYPQATGKVGITGFCYGGGVSNAAAVAYPELACAVPFYGRQAPTADVAKIEAPLLLHFAELDTRINEGWPAYEAALKANNKVYEAYIYPGVNHGFHNDSTPRYDKSAADLAWQRTLKWFDKYLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13008
Length:	278 (219)
Sequences:	22574 (16074)
Seq/√Len:	1086.2

ECOLI - YGHX DLHH YJFP FRSA YFHR PTRB YCJY
BACSU - YUXL CAH YTAP YITV YTMA YQKD YCZH
HALSA - Q9HS46 Q9HN07 Q9HPY2 Q9HP29
SULSO - Q97YB2 Q97VD6 Q7LX61 DLHH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
179_A	188_A	3.637	1.00
164_G	187_C	3.196	1.00
57_T	66_E	2.868	1.00
117_L	145_D	2.783	1.00
152_F	156_Y	2.758	1.00
214_E	243_P	2.491	1.00
59_P	66_E	2.465	1.00
107_A	270_L	2.388	1.00
175_S	188_A	2.320	1.00
190_P	193_G	2.218	1.00
240_Y	268_R	2.182	1.00
238_E	268_R	2.150	1.00
61_P	148_A	2.147	1.00
224_P	241_I	2.143	1.00
81_T	110_I	2.127	1.00
227_E	237_Y	2.116	1.00
83_A	153_M	2.077	1.00
189_V	269_T	2.047	1.00
164_G	273_F	2.047	1.00
71_L	110_I	1.989	1.00
264_L	268_R	1.921	1.00
83_A	159_A	1.911	1.00
74_P	110_I	1.911	1.00
109_Y	274_D	1.891	1.00
69_G	112_L	1.849	1.00
83_A	110_I	1.844	1.00
165_I	175_S	1.843	1.00
151_E	184_E	1.841	1.00
154_Q	184_E	1.773	1.00
103_R	107_A	1.765	1.00
200_D	203_K	1.764	1.00
56_I	69_G	1.756	1.00
242_Y	268_R	1.751	1.00
73_K	110_I	1.749	1.00
54_E	73_K	1.745	1.00
214_E	241_I	1.716	1.00
152_F	155_R	1.705	1.00
89_E	169_C	1.691	1.00
87_V	146_F	1.686	1.00
112_L	149_A	1.685	1.00
227_E	239_A	1.666	1.00
107_A	274_D	1.660	1.00
147_F	151_E	1.658	1.00
147_F	182_Y	1.634	1.00
189_V	273_F	1.618	1.00
74_P	81_T	1.595	1.00
227_E	231_K	1.591	1.00
267_Q	271_K	1.585	1.00
242_Y	264_L	1.564	1.00
168_F	192_Y	1.550	1.00
58_Y	149_A	1.542	1.00
176_N	190_P	1.526	1.00
150_I	163_V	1.522	1.00
150_I	185_L	1.519	1.00
228_A	232_A	1.511	1.00
112_L	153_M	1.498	1.00
268_R	271_K	1.465	1.00
165_I	178_A	1.431	1.00
55_Y	68_R	1.395	1.00
58_Y	69_G	1.392	1.00
84_V	109_Y	1.371	1.00
187_C	272_W	1.359	1.00
83_A	112_L	1.359	1.00
224_P	228_A	1.349	1.00
72_V	113_A	1.313	1.00
139_P	142_L	1.309	1.00
71_L	112_L	1.288	1.00
110_I	159_A	1.266	1.00
189_V	209_L	1.261	1.00
231_K	237_Y	1.249	1.00
168_F	191_F	1.244	1.00
212_F	223_W	1.241	1.00
263_D	267_Q	1.232	1.00
238_E	275_K	1.215	1.00
215_L	244_G	1.214	1.00
86_V	166_T	1.209	1.00
146_F	178_A	1.199	1.00
179_A	206_A	1.198	1.00
101_A	113_A	1.198	1.00
86_V	101_A	1.193	1.00
187_C	276_Y	1.190	1.00
229_A	232_A	1.179	1.00
162_K	186_A	1.177	1.00
57_T	68_R	1.168	1.00
188_A	208_L	1.165	1.00
236_V	276_Y	1.157	1.00
270_L	274_D	1.154	1.00
87_V	165_I	1.152	1.00
137_V	140_T	1.151	1.00
84_V	166_T	1.137	1.00
88_H	116_G	1.136	1.00
176_N	226_Y	1.136	1.00
214_E	244_G	1.133	1.00
190_P	210_L	1.130	1.00
137_V	141_N	1.120	1.00
151_E	155_R	1.103	1.00
211_H	240_Y	1.098	1.00
102_R	106_K	1.072	1.00
62_N	65_G	1.054	1.00
87_V	116_G	1.052	1.00
225_A	228_A	1.050	1.00
143_M	177_A	1.046	1.00
176_N	208_L	1.046	1.00
209_L	240_Y	1.039	1.00
141_N	144_N	1.037	1.00
230_L	237_Y	1.034	1.00
61_P	144_N	1.030	1.00
68_R	115_D	1.030	1.00
165_I	188_A	1.025	1.00
230_L	235_K	1.021	1.00
161_G	186_A	1.019	1.00
86_V	111_A	1.018	1.00
114_P	149_A	1.015	1.00
56_I	152_F	1.008	1.00
52_V	73_K	1.004	1.00
210_L	227_E	0.996	1.00
210_L	223_W	0.995	1.00
101_A	105_A	0.992	1.00
123_Y	126_N	0.988	1.00
211_H	265_A	0.982	1.00
272_W	276_Y	0.980	1.00
98_E	102_R	0.979	1.00
84_V	104_V	0.975	1.00
53_A	72_V	0.969	1.00
229_A	233_N	0.957	1.00
210_L	226_Y	0.948	1.00
73_K	158_Q	0.939	1.00
148_A	151_E	0.937	1.00
177_A	181_A	0.931	1.00
54_E	156_Y	0.924	1.00
265_A	269_T	0.918	1.00
146_F	174_V	0.916	1.00
224_P	239_A	0.916	1.00
103_R	270_L	0.911	1.00
165_I	185_L	0.904	1.00
87_V	114_P	0.904	1.00
166_T	189_V	0.903	1.00
90_N	170_Y	0.893	1.00
191_F	269_T	0.890	1.00
77_M	81_T	0.890	1.00
192_Y	213_A	0.886	1.00
188_A	206_A	0.875	1.00
211_H	242_Y	0.874	1.00
77_M	80_K	0.867	1.00
80_K	160_T	0.866	1.00
82_P	162_K	0.861	1.00
69_G	149_A	0.860	1.00
207_P	276_Y	0.853	1.00
103_R	106_K	0.852	1.00
187_C	273_F	0.851	1.00
222_G	225_A	0.849	1.00
173_G	177_A	0.848	1.00
192_Y	249_F	0.847	1.00
166_T	191_F	0.847	1.00
80_K	158_Q	0.844	1.00
172_G	190_P	0.841	1.00
166_T	269_T	0.834	1.00
208_L	230_L	0.829	1.00
225_A	229_A	0.829	1.00
78_S	81_T	0.824	1.00
242_Y	245_V	0.824	1.00
72_V	105_A	0.822	1.00
212_F	239_A	0.822	1.00
212_F	219_I	0.820	1.00
82_P	160_T	0.817	1.00
72_V	111_A	0.814	1.00
169_C	247_H	0.808	1.00
177_A	180_V	0.808	1.00
271_K	275_K	0.807	1.00
147_F	185_L	0.800	1.00
221_E	224_P	0.798	1.00
151_E	154_Q	0.798	1.00
176_N	193_G	0.796	1.00
83_A	163_V	0.794	1.00
183_P	205_E	0.793	1.00
144_N	148_A	0.785	1.00
202_A	233_N	0.785	1.00
143_M	147_F	0.783	1.00
104_V	269_T	0.781	1.00
212_F	241_I	0.780	1.00
86_V	113_A	0.780	1.00
224_P	227_E	0.779	1.00
223_W	227_E	0.778	1.00
110_I	158_Q	0.777	1.00
103_R	266_W	0.775	1.00
172_G	193_G	0.775	1.00
85_V	150_I	0.773	1.00
76_K	81_T	0.772	1.00
68_R	122_G	0.770	1.00
53_A	70_Y	0.768	1.00
147_F	184_E	0.767	1.00
175_S	190_P	0.765	1.00
85_V	149_A	0.763	1.00
173_G	194_R	0.763	1.00
189_V	211_H	0.762	1.00
84_V	273_F	0.758	1.00
85_V	112_L	0.753	1.00
201_V	229_A	0.745	1.00
104_V	166_T	0.744	1.00
87_V	174_V	0.740	1.00
60_S	65_G	0.740	1.00
85_V	185_L	0.739	1.00
240_Y	264_L	0.737	1.00
140_T	144_N	0.736	1.00
147_F	178_A	0.736	1.00
84_V	111_A	0.735	1.00
223_W	239_A	0.731	1.00
217_T	246_N	0.728	1.00
86_V	97_I	0.727	1.00
109_Y	273_F	0.724	1.00
52_V	75_A	0.724	1.00
105_A	111_A	0.723	1.00
191_F	265_A	0.721	1.00
180_V	200_D	0.720	1.00
58_Y	148_A	0.712	1.00
72_V	101_A	0.710	1.00
142_L	174_V	0.709	1.00
55_Y	70_Y	0.708	1.00
271_K	274_D	0.704	1.00
138_D	141_N	0.702	1.00
221_E	225_A	0.700	1.00
194_R	219_I	0.698	1.00
191_F	211_H	0.693	1.00
198_T	201_V	0.688	1.00
192_Y	248_G	0.686	1.00
164_G	276_Y	0.678	1.00
122_G	125_G	0.671	1.00
94_N	115_D	0.670	1.00
264_L	267_Q	0.668	1.00
209_L	272_W	0.664	1.00
245_V	254_T	0.661	1.00
164_G	186_A	0.660	1.00
150_I	154_Q	0.658	1.00
90_N	117_L	0.654	1.00
84_V	164_G	0.653	1.00
60_S	63_G	0.649	1.00
109_Y	270_L	0.648	1.00
180_V	204_I	0.644	1.00
92_G	173_G	0.643	1.00
208_L	235_K	0.641	1.00
120_V	123_Y	0.639	1.00
266_W	269_T	0.639	1.00
205_E	235_K	0.636	1.00
207_P	236_V	0.635	1.00
88_H	114_P	0.635	1.00
181_A	200_D	0.633	1.00
262_A	265_A	0.631	1.00
228_A	231_K	0.631	1.00
175_S	179_A	0.631	1.00
85_V	146_F	0.626	1.00
182_Y	185_L	0.623	1.00
166_T	273_F	0.620	1.00
137_V	142_L	0.618	1.00
160_T	186_A	0.618	1.00
142_L	170_Y	0.617	1.00
97_I	100_V	0.617	1.00
269_T	273_F	0.615	1.00
201_V	204_I	0.615	1.00
192_Y	216_D	0.612	1.00
50_E	106_K	0.611	1.00
69_G	114_P	0.608	1.00
151_E	182_Y	0.607	1.00
81_T	158_Q	0.603	1.00
144_N	147_F	0.596	1.00
104_V	270_L	0.595	1.00
54_E	158_Q	0.595	1.00
60_S	67_V	0.592	1.00
75_A	106_K	0.590	1.00
209_L	238_E	0.589	1.00
82_P	109_Y	0.588	1.00
60_S	148_A	0.587	1.00
96_Y	100_V	0.587	1.00
116_G	170_Y	0.586	1.00
72_V	102_R	0.586	1.00
154_Q	157_P	0.582	1.00
199_A	202_A	0.582	1.00
95_P	98_E	0.581	1.00
202_A	229_A	0.581	1.00
186_A	207_P	0.581	1.00
105_A	110_I	0.578	1.00
143_M	174_V	0.577	1.00
149_A	153_M	0.577	1.00
238_E	241_I	0.575	1.00
196_A	199_A	0.574	1.00
147_F	181_A	0.573	1.00
166_T	190_P	0.569	1.00
192_Y	250_H	0.564	1.00
210_L	237_Y	0.564	1.00
192_Y	212_F	0.563	1.00
166_T	175_S	0.561	1.00
46_F	49_P	0.558	1.00
70_Y	94_N	0.558	1.00
193_G	212_F	0.557	1.00
154_Q	186_A	0.556	1.00
69_G	152_F	0.553	1.00
208_L	226_Y	0.551	1.00
116_G	142_L	0.550	1.00
58_Y	114_P	0.547	1.00
56_I	112_L	0.547	1.00
109_Y	164_G	0.546	1.00
142_L	145_D	0.546	1.00
209_L	268_R	0.545	1.00
177_A	200_D	0.539	1.00
87_V	175_S	0.538	1.00
207_P	272_W	0.538	1.00
234_N	237_Y	0.535	1.00
170_Y	174_V	0.532	1.00
207_P	275_K	0.529	1.00
59_P	62_N	0.526	1.00
216_D	247_H	0.524	1.00
154_Q	163_V	0.524	1.00
50_E	75_A	0.522	1.00
103_R	263_D	0.518	1.00
143_M	178_A	0.516	1.00
76_K	79_G	0.516	1.00
213_A	216_D	0.516	1.00
270_L	273_F	0.514	1.00
88_H	113_A	0.514	1.00
122_G	126_N	0.513	1.00
149_A	152_F	0.511	1.00
144_N	181_A	0.510	1.00
188_A	226_Y	0.508	1.00
188_A	193_G	0.507	1.00
62_N	144_N	0.505	1.00
138_D	142_L	0.502	1.00
90_N	116_G	0.501	1.00
88_H	91_R	0.501	1.00
51_I	102_R	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
4zv9A	1	0.8561	100	0.356	Contact Map
3f67A	1	0.8058	100	0.405	Contact Map
1xfdA	2	0.9496	100	0.407	Contact Map
1zi8A	1	0.7986	100	0.409	Contact Map
2hdwA	2	0.7878	100	0.412	Contact Map
4q1vA	2	0.9496	100	0.415	Contact Map
2z3zA	2	0.9173	100	0.415	Contact Map
4wjlA	2	0.9496	100	0.421	Contact Map
3azoA	1	0.9532	100	0.423	Contact Map
2ecfA	2	0.9532	100	0.423	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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