Q9HRR2 - HALSA - GREMLIN Contacts

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Q9HRR2 - Cytochrome b6

UniProt:	Q9HRR2	Sequences: MSIERKDDHDHKAWIKEKDLTAIESTFLTVLVWLDRRLRIVDYLELLETLYYRVNLQMPKSHTEQYNLDNKFWYWYPLYSLGFFSTLSYVVAAISGALLGFYYSPSAAAATCGVDGSTVAYCAVAGIMTDLNFGFFLRSLHRWAAQVMTAAVFLHMLRVYFTGSYKEPREVNWLIGIVLLSLTMVFGYTGYLLPWDQLAYWAGQIGVEMSLSIPLVGDWVAQLMFGGFSLGQATLQRMYLLHVFLLPFVVTTVIAIHLGLVWMQGIAEPH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (206)
Sequences:	2407 (695)
Seq/√Len:	48.4

BACSU - QCRB
HALSA - Q9HRR2
SULSO - Q97VH0 Q97V30 Q97UN3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
152_V	183_T	5.297	1.00
186_F	246_L	3.911	1.00
104_S	232_Q	3.138	1.00
60_K	65_Q	3.074	1.00
182_L	253_V	2.936	1.00
185_V	210_S	2.918	1.00
50_L	65_Q	2.880	1.00
97_A	245_L	2.827	1.00
89_Y	254_I	2.825	1.00
106_S	119_V	2.796	1.00
128_M	139_S	2.542	1.00
85_S	151_A	2.484	1.00
84_F	151_A	2.479	1.00
174_L	178_V	2.339	1.00
175_I	256_I	2.270	1.00
185_V	246_L	2.216	1.00
62_H	258_L	2.163	1.00
93_A	251_T	2.044	1.00
195_W	235_L	2.015	1.00
86_T	258_L	1.958	0.99
210_S	224_M	1.938	0.99
156_M	180_L	1.935	0.99
183_T	250_V	1.934	0.99
49_T	53_R	1.931	0.99
136_F	140_L	1.928	0.99
105_P	236_Q	1.886	0.99
102_Y	126_G	1.837	0.99
99_L	127_I	1.830	0.99
97_A	244_F	1.786	0.99
175_I	253_V	1.768	0.99
95_S	140_L	1.740	0.99
133_F	136_F	1.731	0.98
182_L	250_V	1.713	0.98
189_T	241_L	1.692	0.98
218_D	222_Q	1.690	0.98
197_Q	201_W	1.639	0.98
172_N	264_Q	1.629	0.98
53_R	171_V	1.623	0.98
174_L	177_I	1.618	0.98
104_S	119_V	1.602	0.97
106_S	232_Q	1.559	0.97
211_L	221_A	1.554	0.97
59_P	64_E	1.537	0.97
246_L	249_V	1.519	0.96
108_A	119_V	1.512	0.96
101_F	241_L	1.500	0.96
221_A	225_F	1.495	0.96
179_L	250_V	1.494	0.96
93_A	179_L	1.474	0.96
150_A	202_A	1.472	0.96
128_M	138_R	1.451	0.95
159_V	164_S	1.449	0.95
100_G	240_L	1.432	0.95
66_Y	85_S	1.383	0.94
98_L	101_F	1.382	0.94
120_A	123_A	1.368	0.94
179_L	183_T	1.363	0.94
91_V	140_L	1.361	0.94
50_L	53_R	1.350	0.93
252_T	256_I	1.345	0.93
163_G	179_L	1.337	0.93
182_L	246_L	1.324	0.93
195_W	223_L	1.295	0.92
83_F	87_L	1.287	0.92
106_S	236_Q	1.273	0.91
80_S	84_F	1.263	0.91
163_G	166_K	1.235	0.90
58_M	259_G	1.235	0.90
52_Y	56_L	1.234	0.90
92_A	265_G	1.218	0.89
126_G	130_D	1.211	0.89
195_W	200_Y	1.206	0.89
166_K	170_E	1.190	0.88
167_E	264_Q	1.178	0.87
90_V	251_T	1.174	0.87
88_S	151_A	1.173	0.87
53_R	170_E	1.169	0.87
93_A	97_A	1.165	0.87
175_I	260_L	1.149	0.86
186_F	250_V	1.138	0.86
192_L	203_G	1.133	0.85
214_P	217_G	1.120	0.85
80_S	83_F	1.120	0.85
220_V	224_M	1.114	0.84
119_V	122_C	1.108	0.84
171_V	174_L	1.101	0.84
241_L	246_L	1.101	0.84
192_L	221_A	1.100	0.83
60_K	64_E	1.085	0.83
230_L	233_A	1.073	0.82
178_V	253_V	1.060	0.81
71_K	267_A	1.050	0.81
80_S	266_I	1.047	0.80
80_S	86_T	1.042	0.80
85_S	152_V	1.041	0.80
95_S	229_S	1.036	0.80
251_T	254_I	1.033	0.79
223_L	235_L	1.023	0.79
100_G	239_Y	1.016	0.78
104_S	236_Q	1.013	0.78
182_L	185_V	1.011	0.78
241_L	249_V	1.006	0.78
196_D	199_A	1.003	0.77
207_V	221_A	1.002	0.77
154_L	246_L	0.999	0.77
170_E	174_L	0.991	0.77
125_A	129_T	0.986	0.76
125_A	128_M	0.979	0.76
181_S	185_V	0.963	0.74
123_A	127_I	0.960	0.74
188_Y	206_G	0.957	0.74
53_R	178_V	0.951	0.73
213_I	220_V	0.951	0.73
54_V	259_G	0.950	0.73
81_L	147_V	0.948	0.73
222_Q	263_M	0.943	0.73
83_F	86_T	0.941	0.73
107_A	232_Q	0.938	0.72
191_Y	194_P	0.934	0.72
79_Y	92_A	0.934	0.72
253_V	256_I	0.917	0.71
97_A	152_V	0.916	0.71
51_Y	60_K	0.916	0.71
171_V	178_V	0.914	0.70
51_Y	57_Q	0.907	0.70
236_Q	240_L	0.901	0.69
196_D	223_L	0.897	0.69
207_V	225_F	0.893	0.69
192_L	225_F	0.888	0.68
147_V	150_A	0.887	0.68
175_I	259_G	0.883	0.68
100_G	244_F	0.881	0.68
104_S	108_A	0.875	0.67
51_Y	54_V	0.874	0.67
260_L	264_Q	0.869	0.67
255_A	259_G	0.869	0.67
106_S	166_K	0.863	0.66
204_Q	230_L	0.858	0.66
119_V	232_Q	0.856	0.65
62_H	66_Y	0.851	0.65
133_F	165_Y	0.848	0.65
54_V	263_M	0.847	0.65
51_Y	174_L	0.846	0.64
53_R	174_L	0.842	0.64
145_A	247_P	0.837	0.64
49_T	54_V	0.832	0.63
49_T	170_E	0.832	0.63
172_N	183_T	0.823	0.62
157_L	170_E	0.822	0.62
87_L	250_V	0.817	0.62
207_V	230_L	0.817	0.62
58_M	62_H	0.809	0.61
224_M	231_G	0.804	0.61
199_A	206_G	0.793	0.59
83_F	266_I	0.787	0.59
200_Y	204_Q	0.783	0.58
232_Q	236_Q	0.774	0.58
197_Q	235_L	0.764	0.57
108_A	224_M	0.763	0.56
53_R	166_K	0.759	0.56
215_L	219_W	0.759	0.56
163_G	167_E	0.758	0.56
201_W	235_L	0.755	0.56
106_S	231_G	0.744	0.55
94_I	251_T	0.741	0.54
105_P	154_L	0.741	0.54
218_D	252_T	0.739	0.54
219_W	222_Q	0.734	0.54
135_F	138_R	0.733	0.53
216_V	224_M	0.728	0.53
198_L	203_G	0.725	0.53
139_S	229_S	0.722	0.52
70_N	258_L	0.721	0.52
54_V	57_Q	0.712	0.51
59_P	62_H	0.712	0.51
130_D	245_L	0.711	0.51
62_H	151_A	0.709	0.51
126_G	131_L	0.708	0.51
88_S	233_A	0.707	0.51
248_F	252_T	0.706	0.51
204_Q	207_V	0.703	0.50
166_K	263_M	0.703	0.50
105_P	108_A	0.703	0.50
89_Y	148_M	0.699	0.50
225_F	230_L	0.696	0.50
177_I	183_T	0.691	0.49
92_A	144_A	0.691	0.49
148_M	183_T	0.682	0.48
176_G	257_H	0.681	0.48
175_I	178_V	0.681	0.48
50_L	60_K	0.678	0.48
53_R	163_G	0.678	0.48
166_K	218_D	0.677	0.48
178_V	213_I	0.676	0.48
185_V	189_T	0.673	0.47
171_V	260_L	0.671	0.47
102_Y	131_L	0.670	0.47
204_Q	208_E	0.666	0.47
105_P	119_V	0.664	0.47
140_L	256_I	0.664	0.47
249_V	252_T	0.663	0.46
167_E	202_A	0.657	0.46
192_L	238_M	0.656	0.46
87_L	91_V	0.656	0.46
66_Y	151_A	0.651	0.45
104_S	123_A	0.650	0.45
125_A	139_S	0.649	0.45
68_L	72_F	0.648	0.45
101_F	145_A	0.641	0.44
83_F	151_A	0.639	0.44
68_L	266_I	0.633	0.43
88_S	147_V	0.632	0.43
207_V	211_L	0.630	0.43
201_W	207_V	0.630	0.43
195_W	228_F	0.629	0.43
124_V	220_V	0.627	0.43
179_L	254_I	0.627	0.43
102_Y	265_G	0.626	0.43
137_L	218_D	0.625	0.43
57_Q	64_E	0.623	0.42
163_G	267_A	0.620	0.42
62_H	85_S	0.615	0.42
223_L	228_F	0.614	0.42
197_Q	207_V	0.613	0.41
225_F	229_S	0.612	0.41
221_A	228_F	0.612	0.41
66_Y	223_L	0.608	0.41
108_A	122_C	0.606	0.41
180_L	219_W	0.605	0.41
192_L	195_W	0.602	0.40
104_S	256_I	0.602	0.40
49_T	267_A	0.602	0.40
189_T	224_M	0.598	0.40
88_S	91_V	0.596	0.40
163_G	218_D	0.596	0.40
172_N	260_L	0.594	0.40
48_E	181_S	0.593	0.40
128_M	218_D	0.593	0.40
150_A	231_G	0.592	0.39
56_L	218_D	0.591	0.39
94_I	140_L	0.589	0.39
127_I	137_L	0.588	0.39
185_V	253_V	0.587	0.39
130_D	148_M	0.587	0.39
158_R	188_Y	0.585	0.39
94_I	227_G	0.583	0.39
166_K	231_G	0.583	0.39
56_L	122_C	0.575	0.38
167_E	253_V	0.573	0.38
174_L	181_S	0.572	0.38
211_L	225_F	0.572	0.38
66_Y	266_I	0.570	0.37
146_Q	149_T	0.566	0.37
66_Y	83_F	0.564	0.37
51_Y	170_E	0.563	0.37
147_V	267_A	0.562	0.37
94_I	125_A	0.562	0.37
127_I	156_M	0.560	0.36
210_S	220_V	0.555	0.36
252_T	255_A	0.555	0.36
100_G	137_L	0.554	0.36
55_N	202_A	0.554	0.36
105_P	171_V	0.554	0.36
48_E	152_V	0.553	0.36
153_F	199_A	0.553	0.36
222_Q	249_V	0.551	0.36
142_R	267_A	0.550	0.35
94_I	122_C	0.549	0.35
244_F	248_F	0.548	0.35
146_Q	187_G	0.546	0.35
178_V	181_S	0.544	0.35
208_E	221_A	0.539	0.34
192_L	212_S	0.539	0.34
150_A	252_T	0.538	0.34
208_E	225_F	0.532	0.34
184_M	210_S	0.532	0.34
108_A	166_K	0.531	0.34
225_F	234_T	0.531	0.34
92_A	142_R	0.530	0.34
94_I	265_G	0.530	0.34
186_F	248_F	0.530	0.34
58_M	255_A	0.529	0.34
149_T	268_E	0.527	0.33
49_T	55_N	0.526	0.33
163_G	220_V	0.525	0.33
136_F	166_K	0.525	0.33
211_L	220_V	0.524	0.33
51_Y	55_N	0.522	0.33
124_V	261_V	0.521	0.33
178_V	182_L	0.520	0.33
204_Q	225_F	0.520	0.33
216_V	263_M	0.520	0.33
59_P	150_A	0.519	0.33
55_N	260_L	0.515	0.32
179_L	251_T	0.513	0.32
197_Q	200_Y	0.512	0.32
150_A	154_L	0.512	0.32
62_H	172_N	0.510	0.32
205_I	238_M	0.510	0.32
81_L	267_A	0.508	0.32
186_F	189_T	0.508	0.32
146_Q	206_G	0.508	0.32
171_V	263_M	0.508	0.32
62_H	264_Q	0.505	0.31
95_S	159_V	0.504	0.31
166_K	254_I	0.503	0.31
179_L	182_L	0.502	0.31
103_Y	137_L	0.502	0.31
107_A	120_A	0.500	0.31

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
2qjyA	2	0.8259	100	0.251	Contact Map
4ogqA	2	0.7926	100	0.267	Contact Map
3cx5C	2	0.7778	100	0.273	Contact Map
1pp9C	2	0.7407	100	0.287	Contact Map
1kqfC	3	0.5593	93.3	0.945	Contact Map
4gd3A	2	0.5963	90.8	0.948	Contact Map
1zcdA	1	0.6333	19.4	0.971	Contact Map
2kdrX	1	0.1037	8.2	0.976	Contact Map
3ff5A	2	0.1185	5.6	0.977	Contact Map
3rjoA	1	0.2333	5	0.978	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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