YHCC - ECOLI - GREMLIN Contacts

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YHCC - Uncharacterized protein YhcC

UniProt:	P0ADW6	Sequences: MQLQKLVNMFGGDLTRRYGQKVHKLTLHGGFSCPNRDGTIGRGGCTFCNVASFADEAQQHRSIAEQLAHQANLVNRAKRYLAYFQAYTSTFAEVQVLRSMYQQAVSQANIVGLCVGTRPDCVPDAVLDLLCEYKDQGYEVWLELGLQTAHDKTLHRINRGHDFACYQRTTQLARQRGLKVCSHLIVGLPGEGQAECLQTLERVVETGVDGIKLHPLHIVKGSIMAKAWEAGRLNGIELEDYTLTAGEMIRHTPPEVIYHRISASARRPTLLAPLWCENRWTGMVELDRYLNEHGVQGSALGRPWLPPTE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12809
Length:	309 (238)
Sequences:	8630 (6109)
Seq/√Len:	396.0

ECOLI - YHCC HEMN YGGW MIAB RIMO
BACSU - YTQA YQER HEMZ MTAB MIAB
HALSA - Q9HNU5 Q9HPR3 Q9HP07
SULSO - Q97ZU7 Q97W60 Q97UW2

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_D	165_C	3.395	1.00
68_A	103_Q	2.954	1.00
128_D	176_R	2.584	1.00
201_E	251_H	2.560	1.00
124_D	172_L	2.554	1.00
174_R	209_D	2.449	1.00
150_H	195_E	2.438	1.00
151_D	163_F	2.393	1.00
167_Q	202_R	2.306	1.00
197_L	247_E	2.291	1.00
142_L	173_A	2.219	1.00
152_K	195_E	2.135	1.00
237_E	240_D	2.111	1.00
151_D	164_A	2.078	1.00
124_D	175_Q	2.062	1.00
68_A	99_S	2.048	1.00
146_L	166_Y	2.047	1.00
98_R	132_E	2.027	1.00
72_N	103_Q	2.012	1.00
98_R	102_Q	2.000	1.00
193_Q	247_E	1.987	1.00
168_R	172_L	1.972	1.00
171_Q	175_Q	1.948	1.00
164_A	168_R	1.910	1.00
150_H	198_Q	1.903	1.00
163_F	167_Q	1.885	1.00
107_Q	110_I	1.871	1.00
168_R	171_Q	1.801	1.00
174_R	207_G	1.747	1.00
204_V	251_H	1.711	1.00
46_T	227_A	1.705	1.00
167_Q	171_Q	1.697	1.00
64_A	68_A	1.690	1.00
184_L	199_T	1.682	1.00
227_A	232_R	1.678	1.00
201_E	205_E	1.674	1.00
198_Q	201_E	1.660	1.00
202_R	205_E	1.656	1.00
207_G	267_R	1.652	1.00
69_H	72_N	1.617	1.00
65_E	99_S	1.604	1.00
127_L	173_A	1.603	1.00
204_V	255_E	1.582	1.00
93_E	96_V	1.579	1.00
165_C	168_R	1.576	1.00
34_P	79_R	1.559	1.00
127_L	176_R	1.557	1.00
193_Q	243_L	1.552	1.00
103_Q	106_S	1.550	1.00
149_A	202_R	1.547	1.00
123_P	126_V	1.505	1.00
192_G	195_E	1.503	1.00
151_D	155_H	1.503	1.00
129_L	133_Y	1.482	1.00
44_G	52_S	1.477	1.00
196_C	248_M	1.472	1.00
96_V	99_S	1.472	1.00
163_F	202_R	1.469	1.00
197_L	201_E	1.466	1.00
198_Q	202_R	1.466	1.00
124_D	128_D	1.463	1.00
94_V	129_L	1.442	1.00
46_T	224_M	1.415	1.00
152_K	155_H	1.411	1.00
225_A	229_E	1.403	1.00
148_T	153_T	1.386	1.00
247_E	251_H	1.366	1.00
197_L	251_H	1.357	1.00
157_I	188_L	1.348	1.00
247_E	250_R	1.340	1.00
172_L	175_Q	1.327	1.00
68_A	72_N	1.327	1.00
153_T	195_E	1.326	1.00
131_C	176_R	1.322	1.00
144_L	173_A	1.313	1.00
170_T	180_V	1.303	1.00
182_S	208_V	1.301	1.00
156_R	190_G	1.300	1.00
223_I	227_A	1.298	1.00
152_K	190_G	1.271	1.00
128_D	132_E	1.270	1.00
98_R	133_Y	1.269	1.00
200_L	248_M	1.267	1.00
98_R	129_L	1.264	1.00
213_L	248_M	1.256	1.00
193_Q	197_L	1.249	1.00
80_Y	111_V	1.248	1.00
149_A	203_V	1.245	1.00
194_A	197_L	1.243	1.00
131_C	178_L	1.239	1.00
64_A	103_Q	1.224	1.00
182_S	203_V	1.222	1.00
158_N	223_I	1.218	1.00
149_A	199_T	1.216	1.00
211_I	252_T	1.211	1.00
193_Q	240_D	1.208	1.00
150_H	153_T	1.206	1.00
251_H	255_E	1.189	1.00
223_I	226_K	1.177	1.00
166_Y	182_S	1.172	1.00
71_A	104_A	1.167	1.00
69_H	73_L	1.163	1.00
61_R	96_V	1.155	1.00
167_Q	205_E	1.129	1.00
224_M	228_W	1.127	1.00
167_Q	206_T	1.125	1.00
268_P	271_L	1.122	1.00
38_G	92_A	1.117	1.00
125_A	128_D	1.117	1.00
92_A	96_V	1.115	1.00
72_N	107_Q	1.107	1.00
153_T	199_T	1.106	1.00
156_R	227_A	1.100	1.00
78_K	109_N	1.096	1.00
184_L	203_V	1.095	1.00
240_D	244_T	1.094	1.00
152_K	156_R	1.086	1.00
115_V	135_D	1.084	1.00
120_D	160_G	1.075	1.00
146_L	149_A	1.069	1.00
65_E	68_A	1.066	1.00
122_V	169_T	1.059	1.00
129_L	132_E	1.044	1.00
70_Q	74_V	1.042	1.00
218_I	225_A	1.034	1.00
36_R	104_A	1.033	1.00
200_L	251_H	1.031	1.00
124_D	176_R	1.027	1.00
226_K	230_A	1.026	1.00
269_T	273_P	1.026	1.00
242_T	246_G	1.025	1.00
250_R	254_P	1.021	1.00
146_L	182_S	1.007	1.00
102_Q	106_S	0.997	1.00
169_T	172_L	0.992	1.00
102_Q	133_Y	0.992	1.00
226_K	229_E	0.978	1.00
200_L	204_V	0.977	1.00
63_I	67_L	0.975	1.00
170_T	206_T	0.971	1.00
66_Q	69_H	0.969	1.00
269_T	272_A	0.966	1.00
46_T	158_N	0.961	1.00
186_V	196_C	0.958	1.00
187_G	241_Y	0.956	1.00
99_S	103_Q	0.955	1.00
249_I	265_A	0.950	1.00
174_R	180_V	0.944	1.00
61_R	99_S	0.943	1.00
84_F	97_L	0.935	1.00
172_L	176_R	0.933	1.00
127_L	172_L	0.930	1.00
72_N	76_R	0.930	1.00
149_A	163_F	0.927	1.00
186_V	248_M	0.923	1.00
142_L	178_L	0.923	1.00
164_A	167_Q	0.922	1.00
220_K	225_A	0.918	1.00
46_T	157_I	0.918	1.00
114_C	141_W	0.916	1.00
240_D	243_L	0.902	1.00
101_Y	133_Y	0.899	1.00
218_I	224_M	0.897	1.00
194_A	198_Q	0.896	1.00
90_T	130_L	0.890	1.00
225_A	228_W	0.889	1.00
170_T	208_V	0.883	1.00
151_D	162_D	0.871	1.00
61_R	65_E	0.871	1.00
243_L	246_G	0.869	1.00
94_V	125_A	0.859	1.00
117_T	122_V	0.859	1.00
193_Q	244_T	0.855	1.00
201_E	204_V	0.855	1.00
180_V	209_D	0.855	1.00
62_S	66_Q	0.852	1.00
246_G	250_R	0.848	1.00
258_Y	271_L	0.846	1.00
82_A	110_I	0.845	1.00
101_Y	105_V	0.843	1.00
125_A	129_L	0.843	1.00
179_K	209_D	0.839	1.00
249_I	253_P	0.839	1.00
105_V	133_Y	0.838	1.00
148_T	199_T	0.829	1.00
72_N	75_N	0.827	1.00
170_T	182_S	0.824	1.00
225_A	271_L	0.822	1.00
94_V	126_V	0.810	1.00
185_I	216_L	0.809	1.00
115_V	130_L	0.803	1.00
171_Q	205_E	0.802	1.00
62_S	65_E	0.799	1.00
126_V	130_L	0.792	1.00
173_A	180_V	0.787	1.00
65_E	69_H	0.786	1.00
35_N	71_A	0.786	1.00
94_V	98_R	0.786	1.00
261_I	264_S	0.777	1.00
79_R	111_V	0.768	1.00
90_T	115_V	0.766	1.00
196_C	244_T	0.765	1.00
203_V	208_V	0.765	1.00
204_V	252_T	0.764	1.00
215_P	241_Y	0.763	1.00
64_A	100_M	0.762	1.00
266_R	269_T	0.761	1.00
243_L	247_E	0.761	1.00
219_V	222_S	0.756	1.00
46_T	223_I	0.752	1.00
251_H	254_P	0.751	1.00
97_L	101_Y	0.750	1.00
173_A	178_L	0.745	1.00
181_C	210_G	0.744	1.00
105_V	134_K	0.743	1.00
224_M	233_L	0.743	1.00
144_L	169_T	0.736	1.00
218_I	228_W	0.736	1.00
204_V	253_P	0.736	1.00
102_Q	105_V	0.734	1.00
84_F	100_M	0.733	1.00
122_V	127_L	0.730	1.00
96_V	100_M	0.724	1.00
260_R	263_A	0.723	1.00
154_L	161_H	0.723	1.00
97_L	115_V	0.723	1.00
249_I	259_H	0.716	1.00
122_V	172_L	0.713	1.00
119_P	169_T	0.712	1.00
208_V	257_I	0.712	1.00
122_V	126_V	0.711	1.00
99_S	102_Q	0.709	1.00
203_V	211_I	0.706	1.00
93_E	126_V	0.706	1.00
186_V	213_L	0.705	1.00
90_T	117_T	0.698	1.00
270_L	273_P	0.696	1.00
64_A	96_V	0.688	1.00
258_Y	268_P	0.688	1.00
90_T	121_C	0.687	0.99
249_I	252_T	0.687	0.99
75_N	110_I	0.685	0.99
196_C	200_L	0.683	0.99
260_R	264_S	0.682	0.99
67_L	70_Q	0.681	0.99
82_A	104_A	0.680	0.99
179_K	270_L	0.679	0.99
153_T	188_L	0.674	0.99
242_T	245_A	0.673	0.99
161_H	166_Y	0.671	0.99
84_F	104_A	0.669	0.99
180_V	208_V	0.663	0.99
268_P	273_P	0.662	0.99
252_T	257_I	0.661	0.99
239_E	243_L	0.659	0.99
207_G	255_E	0.658	0.99
73_L	76_R	0.652	0.99
171_Q	174_R	0.649	0.99
119_P	159_R	0.646	0.99
34_P	104_A	0.645	0.99
101_Y	113_L	0.644	0.99
190_G	234_N	0.643	0.99
66_Q	70_Q	0.642	0.99
209_D	270_L	0.642	0.99
127_L	131_C	0.638	0.99
67_L	71_A	0.637	0.99
43_G	160_G	0.635	0.99
42_R	121_C	0.634	0.99
259_H	265_A	0.630	0.99
268_P	274_L	0.630	0.99
236_I	241_Y	0.626	0.99
186_V	215_P	0.626	0.99
191_E	244_T	0.623	0.99
70_Q	73_L	0.623	0.99
141_W	181_C	0.621	0.99
81_L	114_C	0.621	0.99
143_E	181_C	0.620	0.99
97_L	129_L	0.619	0.99
123_P	172_L	0.615	0.99
63_I	66_Q	0.615	0.99
231_G	234_N	0.613	0.99
143_E	183_H	0.610	0.99
117_T	142_L	0.608	0.99
58_Q	62_S	0.604	0.99
64_A	99_S	0.600	0.99
57_A	60_H	0.600	0.99
68_A	106_S	0.599	0.99
43_G	158_N	0.597	0.99
259_H	262_S	0.593	0.99
94_V	133_Y	0.592	0.99
246_G	249_I	0.591	0.98
71_A	108_A	0.591	0.98
71_A	74_V	0.590	0.98
46_T	156_R	0.588	0.98
36_R	67_L	0.587	0.98
209_D	257_I	0.586	0.98
163_F	166_Y	0.584	0.98
55_D	60_H	0.584	0.98
170_T	174_R	0.583	0.98
242_T	249_I	0.583	0.98
157_I	189_P	0.582	0.98
117_T	144_L	0.582	0.98
269_T	274_L	0.582	0.98
248_M	251_H	0.581	0.98
236_I	244_T	0.580	0.98
153_T	191_E	0.580	0.98
174_R	208_V	0.579	0.98
122_V	144_L	0.578	0.98
128_D	131_C	0.578	0.98
105_V	113_L	0.577	0.98
238_L	242_T	0.574	0.98
75_N	107_Q	0.573	0.98
166_Y	170_T	0.572	0.98
216_L	224_M	0.572	0.98
153_T	156_R	0.565	0.98
188_L	199_T	0.558	0.98
200_L	252_T	0.558	0.98
155_H	162_D	0.553	0.98
127_L	178_L	0.551	0.98
66_Q	74_V	0.549	0.98
147_Q	159_R	0.548	0.98
68_A	71_A	0.547	0.98
268_P	272_A	0.544	0.97
188_L	191_E	0.544	0.97
151_D	154_L	0.543	0.97
60_H	96_V	0.542	0.97
71_A	75_N	0.541	0.97
126_V	129_L	0.540	0.97
37_D	40_I	0.539	0.97
97_L	133_Y	0.539	0.97
183_H	214_H	0.532	0.97
43_G	120_D	0.532	0.97
102_Q	132_E	0.532	0.97
182_S	211_I	0.530	0.97
195_E	198_Q	0.530	0.97
166_Y	208_V	0.529	0.97
63_I	70_Q	0.529	0.97
146_L	202_R	0.527	0.97
104_A	110_I	0.525	0.97
71_A	107_Q	0.524	0.97
49_N	217_H	0.524	0.97
262_S	265_A	0.521	0.97
228_W	233_L	0.516	0.96
141_W	210_G	0.516	0.96
163_F	206_T	0.512	0.96
245_A	249_I	0.511	0.96
183_H	212_K	0.510	0.96
241_Y	245_A	0.508	0.96
44_G	158_N	0.508	0.96
237_E	241_Y	0.507	0.96
45_C	48_C	0.507	0.96
95_Q	98_R	0.506	0.96
32_S	35_N	0.504	0.96
234_N	237_E	0.504	0.96
68_A	107_Q	0.501	0.96
91_F	121_C	0.501	0.96
86_A	89_S	0.500	0.96

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
1oltA	1	0.9644	100	0.428	Contact Map
4jc0A	1	0.9515	100	0.544	Contact Map
2qgqA	1	0.7961	100	0.55	Contact Map
4u0oB	1	0.7994	100	0.612	Contact Map
1r30A	2	0.8964	100	0.62	Contact Map
3t7vA	1	0.9094	99.9	0.64	Contact Map
4wcxA	1	0.932	99.9	0.643	Contact Map
3iixA	1	0.9159	99.9	0.645	Contact Map
4rtbA	2	0.9126	99.9	0.656	Contact Map
4r33A	2	0.9029	99.9	0.658	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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