Q9HPM9 - HALSA - GREMLIN Contacts

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Q9HPM9 - Cobalamin biosynthesis

UniProt:	Q9HPM9	Sequences: MSTDDTTTTDDSTSNCGASTTDTDDSTSSCGGSTTDTDDSASSCGGASGSSDSSGCGASSDTDSNEQTVSATVDDFDADPGSLVAVGLGPGRPEGMTDRATAALADAEHIVGYTTYVDLLPDEITDDAEEIYDTPMCGEVSRTEEAVDRALAGNHVAIIGSGDPNVYALAGLALEITESKGATPSMLDFEVVPGVPAAQSCGARLGAPLVNDSVSISLSDHLTPMPEIESRLHAVASEEFTISIYNPWSRKRRENFQKACEILLAHRDADTPVGIVHGAGREDEEVEITTLGELESYGETDLIDMTTTVVIGNAETYVFDDRMVTPRGYETKYDY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	335 (253)
Sequences:	1465 (898)
Seq/√Len:	56.5

ECOLI - CYSG
BACSU - NASF SUMT
HALSA - Q9HPM9 Q9HPN2 Q9HPN0 Q9HMY4
SULSO - Q97WC5 Q97WC9 Q97W12 Q97UT5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
201_C	279_A	5.216	1.00
84_V	103_A	4.669	1.00
204_R	284_E	3.141	1.00
128_A	132_Y	3.130	1.00
289_T	293_E	3.015	1.00
110_I	124_I	2.948	1.00
267_R	271_T	2.820	1.00
269_A	292_G	2.764	1.00
275_I	307_T	2.709	1.00
277_H	285_E	2.582	1.00
82_S	190_E	2.505	1.00
197_A	245_Y	2.504	1.00
103_A	192_V	2.465	1.00
82_S	155_H	2.415	1.00
273_V	294_L	2.410	1.00
233_H	265_A	2.383	1.00
258_K	261_E	2.357	1.00
149_R	152_A	2.248	1.00
97_T	195_V	2.194	1.00
129_E	132_Y	2.180	1.00
289_T	297_Y	2.108	1.00
244_I	311_I	2.089	1.00
278_G	281_R	2.049	1.00
100_A	192_V	2.040	1.00
276_V	279_A	2.024	1.00
148_D	152_A	1.994	1.00
236_A	291_L	1.979	1.00
289_T	294_L	1.960	1.00
66_E	72_T	1.886	1.00
278_G	283_D	1.866	1.00
165_N	170_A	1.856	0.99
231_R	237_S	1.838	0.99
244_I	247_P	1.821	0.99
260_C	295_E	1.817	0.99
144_E	148_D	1.802	0.99
232_L	259_A	1.778	0.99
96_M	100_A	1.776	0.99
151_L	180_K	1.770	0.99
276_V	310_V	1.743	0.99
128_A	131_I	1.687	0.99
256_F	294_L	1.682	0.99
147_V	176_I	1.652	0.99
66_E	69_V	1.636	0.99
290_T	293_E	1.633	0.99
164_P	168_A	1.632	0.99
141_S	144_E	1.596	0.98
111_V	149_R	1.589	0.98
82_S	188_D	1.588	0.98
176_I	180_K	1.587	0.98
63_D	71_A	1.576	0.98
101_T	105_A	1.570	0.98
67_Q	70_S	1.568	0.98
270_D	292_G	1.566	0.98
94_E	102_A	1.535	0.98
110_I	117_V	1.519	0.98
99_R	103_A	1.516	0.98
256_F	303_I	1.511	0.98
62_T	70_S	1.497	0.98
204_R	280_G	1.492	0.98
158_I	173_A	1.491	0.98
96_M	120_L	1.478	0.97
64_S	71_A	1.458	0.97
64_S	68_T	1.429	0.97
296_S	300_T	1.415	0.97
111_V	145_E	1.399	0.96
218_L	245_Y	1.389	0.96
99_R	192_V	1.379	0.96
145_E	149_R	1.352	0.96
61_D	64_S	1.347	0.96
202_G	245_Y	1.335	0.95
130_E	149_R	1.330	0.95
201_C	276_V	1.323	0.95
229_E	258_K	1.315	0.95
83_L	177_T	1.308	0.95
196_P	199_Q	1.302	0.95
67_Q	71_A	1.297	0.95
125_T	128_A	1.296	0.94
80_P	151_L	1.295	0.94
102_A	106_D	1.291	0.94
94_E	99_R	1.290	0.94
65_N	68_T	1.288	0.94
202_G	310_V	1.288	0.94
84_V	155_H	1.283	0.94
277_H	304_D	1.274	0.94
59_S	69_V	1.270	0.94
166_V	199_Q	1.254	0.93
111_V	146_A	1.242	0.93
226_P	229_E	1.235	0.93
68_T	71_A	1.216	0.92
107_A	157_A	1.216	0.92
273_V	295_E	1.213	0.92
293_E	297_Y	1.208	0.92
244_I	259_A	1.208	0.92
99_R	190_E	1.208	0.92
59_S	62_T	1.192	0.92
197_A	218_L	1.169	0.91
168_A	171_G	1.168	0.91
103_A	190_E	1.167	0.91
92_R	99_R	1.150	0.90
104_L	124_I	1.149	0.90
62_T	69_V	1.140	0.90
63_D	67_Q	1.138	0.90
60_S	65_N	1.135	0.89
260_C	264_L	1.111	0.88
84_V	157_A	1.109	0.88
118_D	122_D	1.098	0.88
86_V	157_A	1.087	0.87
277_H	303_I	1.084	0.87
60_S	64_S	1.078	0.87
59_S	65_N	1.076	0.87
104_L	157_A	1.070	0.87
59_S	66_E	1.062	0.86
272_P	286_V	1.059	0.86
139_E	246_N	1.058	0.86
199_Q	216_I	1.057	0.86
62_T	66_E	1.057	0.86
160_G	169_L	1.056	0.86
64_S	72_T	1.056	0.86
86_V	192_V	1.053	0.86
65_N	73_V	1.039	0.85
313_N	316_T	1.038	0.85
223_T	227_E	1.037	0.85
231_R	234_A	1.034	0.85
160_G	246_N	1.025	0.84
71_A	77_D	1.018	0.84
68_T	73_V	1.015	0.83
139_E	160_G	1.008	0.83
139_E	169_L	1.001	0.83
275_I	303_I	0.999	0.82
99_R	131_I	0.990	0.82
147_V	180_K	0.983	0.81
217_S	240_F	0.982	0.81
198_A	209_L	0.971	0.81
175_E	320_D	0.971	0.81
80_P	188_D	0.970	0.81
169_L	246_N	0.967	0.80
174_L	189_F	0.958	0.80
260_C	263_L	0.957	0.80
172_L	210_V	0.954	0.79
149_R	154_N	0.952	0.79
166_V	216_I	0.940	0.78
225_M	255_N	0.936	0.78
109_H	149_R	0.930	0.78
130_E	154_N	0.929	0.78
160_G	173_A	0.929	0.78
249_S	255_N	0.927	0.77
71_A	74_D	0.926	0.77
113_Y	173_A	0.923	0.77
139_E	142_R	0.922	0.77
277_H	305_M	0.918	0.77
68_T	72_T	0.911	0.76
233_H	237_S	0.910	0.76
59_S	71_A	0.909	0.76
113_Y	246_N	0.902	0.76
262_I	266_H	0.902	0.76
64_S	67_Q	0.900	0.75
243_S	310_V	0.899	0.75
113_Y	160_G	0.898	0.75
119_L	122_D	0.898	0.75
60_S	63_D	0.894	0.75
214_V	316_T	0.891	0.75
137_C	141_S	0.887	0.74
62_T	65_N	0.887	0.74
115_T	139_E	0.882	0.74
116_Y	120_L	0.869	0.73
137_C	164_P	0.864	0.72
220_D	224_P	0.863	0.72
115_T	306_T	0.862	0.72
165_N	174_L	0.861	0.72
113_Y	139_E	0.861	0.72
65_N	72_T	0.857	0.72
60_S	67_Q	0.856	0.72
60_S	69_V	0.854	0.71
204_R	323_M	0.843	0.70
160_G	168_A	0.841	0.70
66_E	73_V	0.840	0.70
261_E	264_L	0.840	0.70
109_H	154_N	0.838	0.70
84_V	190_E	0.837	0.70
72_T	79_D	0.836	0.70
271_T	313_N	0.828	0.69
67_Q	73_V	0.823	0.69
150_A	187_L	0.820	0.68
86_V	104_L	0.820	0.68
66_E	77_D	0.814	0.68
62_T	67_Q	0.810	0.67
59_S	296_S	0.805	0.67
113_Y	169_L	0.801	0.66
111_V	278_G	0.799	0.66
115_T	160_G	0.795	0.66
71_A	75_D	0.791	0.66
63_D	66_E	0.790	0.65
212_D	246_N	0.790	0.65
197_A	202_G	0.785	0.65
148_D	151_L	0.778	0.64
84_V	100_A	0.775	0.64
267_R	291_L	0.769	0.63
292_G	296_S	0.764	0.63
68_T	81_G	0.764	0.63
234_A	237_S	0.764	0.63
177_T	275_I	0.760	0.62
287_E	303_I	0.760	0.62
205_L	274_G	0.760	0.62
72_T	75_D	0.755	0.62
150_A	206_G	0.753	0.62
147_V	151_L	0.752	0.62
248_W	307_T	0.745	0.61
60_S	66_E	0.745	0.61
61_D	66_E	0.744	0.61
287_E	302_L	0.743	0.61
101_T	123_E	0.743	0.61
67_Q	72_T	0.743	0.61
65_N	74_D	0.741	0.60
209_L	245_Y	0.741	0.60
100_A	120_L	0.739	0.60
65_N	69_V	0.738	0.60
69_V	74_D	0.737	0.60
88_L	116_Y	0.732	0.59
244_I	275_I	0.725	0.59
260_C	294_L	0.725	0.59
64_S	70_S	0.722	0.58
217_S	234_A	0.722	0.58
61_D	65_N	0.719	0.58
239_E	249_S	0.719	0.58
200_S	280_G	0.718	0.58
114_T	284_E	0.713	0.57
88_L	120_L	0.710	0.57
271_T	291_L	0.708	0.57
114_T	307_T	0.708	0.57
115_T	172_L	0.704	0.57
248_W	303_I	0.701	0.56
98_D	132_Y	0.698	0.56
257_Q	261_E	0.698	0.56
145_E	148_D	0.694	0.55
66_E	70_S	0.693	0.55
180_K	187_L	0.691	0.55
112_G	247_P	0.690	0.55
244_I	324_V	0.688	0.55
171_G	210_V	0.685	0.54
217_S	242_I	0.683	0.54
160_G	212_D	0.681	0.54
285_E	304_D	0.679	0.54
98_D	101_T	0.678	0.54
161_S	306_T	0.678	0.54
263_L	304_D	0.676	0.54
92_R	280_G	0.673	0.53
72_T	76_F	0.672	0.53
59_S	63_D	0.665	0.52
118_D	121_P	0.662	0.52
105_A	192_V	0.661	0.52
211_N	317_Y	0.660	0.52
60_S	292_G	0.659	0.52
89_G	163_D	0.657	0.51
176_I	179_S	0.656	0.51
171_G	276_V	0.652	0.51
189_F	278_G	0.651	0.51
231_R	239_E	0.651	0.51
213_S	224_P	0.651	0.51
207_A	259_A	0.647	0.50
235_V	240_F	0.645	0.50
126_D	129_E	0.634	0.49
72_T	80_P	0.631	0.49
134_T	305_M	0.630	0.48
274_G	323_M	0.630	0.48
69_V	77_D	0.628	0.48
122_D	216_I	0.627	0.48
263_L	270_D	0.624	0.48
201_C	244_I	0.621	0.48
112_G	116_Y	0.621	0.48
135_P	138_G	0.621	0.48
288_I	304_D	0.619	0.47
72_T	77_D	0.617	0.47
229_E	290_T	0.616	0.47
215_S	242_I	0.614	0.47
103_A	106_D	0.613	0.47
217_S	244_I	0.609	0.46
69_V	73_V	0.608	0.46
285_E	303_I	0.607	0.46
99_R	186_M	0.606	0.46
172_L	306_T	0.605	0.46
270_D	300_T	0.604	0.46
139_E	212_D	0.601	0.45
294_L	308_T	0.601	0.45
203_A	239_E	0.601	0.45
202_G	218_L	0.599	0.45
114_T	166_V	0.599	0.45
256_F	309_V	0.598	0.45
138_G	141_S	0.597	0.45
263_L	296_S	0.597	0.45
229_E	262_I	0.592	0.44
164_P	306_T	0.590	0.44
59_S	67_Q	0.589	0.44
63_D	296_S	0.587	0.44
255_N	275_I	0.587	0.44
84_V	107_A	0.585	0.44
83_L	229_E	0.585	0.44
188_D	313_N	0.584	0.44
149_R	170_A	0.583	0.43
155_H	191_V	0.582	0.43
276_V	286_V	0.578	0.43
201_C	275_I	0.578	0.43
248_W	275_I	0.577	0.43
171_G	274_G	0.577	0.43
62_T	71_A	0.575	0.43
294_L	297_Y	0.574	0.42
148_D	282_E	0.574	0.42
189_F	196_P	0.572	0.42
62_T	73_V	0.572	0.42
76_F	79_D	0.570	0.42
60_S	118_D	0.568	0.42
63_D	73_V	0.568	0.42
196_P	245_Y	0.564	0.41
142_R	246_N	0.562	0.41
139_E	173_A	0.562	0.41
147_V	195_V	0.561	0.41
151_L	186_M	0.561	0.41
70_S	73_V	0.560	0.41
209_L	218_L	0.560	0.41
172_L	212_D	0.558	0.41
225_M	228_I	0.557	0.41
99_R	248_W	0.557	0.41
267_R	313_N	0.556	0.41
158_I	306_T	0.556	0.41
242_I	263_L	0.554	0.40
109_H	132_Y	0.554	0.40
173_A	246_N	0.554	0.40
65_N	70_S	0.553	0.40
207_A	274_G	0.553	0.40
84_V	99_R	0.553	0.40
61_D	67_Q	0.553	0.40
100_A	228_I	0.553	0.40
115_T	308_T	0.552	0.40
131_I	276_V	0.551	0.40
208_P	274_G	0.550	0.40
198_A	245_Y	0.549	0.40
69_V	78_A	0.548	0.40
205_L	286_V	0.548	0.40
102_A	262_I	0.546	0.40
202_G	209_L	0.545	0.39
142_R	169_L	0.545	0.39
61_D	68_T	0.545	0.39
180_K	186_M	0.543	0.39
261_E	296_S	0.542	0.39
178_E	265_A	0.541	0.39
85_A	169_L	0.541	0.39
160_G	222_L	0.541	0.39
195_V	205_L	0.540	0.39
171_G	208_P	0.539	0.39
62_T	72_T	0.538	0.39
158_I	172_L	0.536	0.38
60_S	72_T	0.536	0.38
123_E	126_D	0.535	0.38
61_D	296_S	0.534	0.38
169_L	212_D	0.534	0.38
205_L	310_V	0.532	0.38
69_V	75_D	0.532	0.38
103_A	315_E	0.531	0.38
92_R	286_V	0.529	0.38
227_E	230_S	0.529	0.38
95_G	99_R	0.527	0.38
222_L	249_S	0.526	0.37
102_A	187_L	0.525	0.37
63_D	69_V	0.521	0.37
170_A	191_V	0.519	0.37
216_I	244_I	0.519	0.37
115_T	215_S	0.518	0.37
101_T	124_I	0.516	0.36
82_S	104_L	0.516	0.36
108_E	257_Q	0.515	0.36
83_L	158_I	0.514	0.36
235_V	239_E	0.513	0.36
277_H	287_E	0.512	0.36
112_G	200_S	0.512	0.36
257_Q	296_S	0.512	0.36
63_D	70_S	0.511	0.36
260_C	268_D	0.510	0.36
199_Q	209_L	0.505	0.35
94_E	119_L	0.503	0.35
161_S	168_A	0.500	0.35
139_E	247_P	0.500	0.35

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
1pjqA	2	0.9254	100	0.418	Contact Map
2yboA	2	0.7194	100	0.458	Contact Map
2zvbA	2	0.7254	100	0.46	Contact Map
1s4dA	4	0.7433	100	0.47	Contact Map
3nutA	2	0.7045	100	0.479	Contact Map
4e16A	2	0.6657	100	0.497	Contact Map
1cbfA	2	0.6955	100	0.498	Contact Map
3kwpA	2	0.6746	100	0.501	Contact Map
1ve2A	2	0.6687	100	0.504	Contact Map
3ndcA	2	0.6955	100	0.506	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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