SP2D - BACSU - GREMLIN Contacts

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SP2D - Stage II sporulation protein D

UniProt:	P07372	Sequences: MKQFAITLSVLCALILLVPTLLVIPFQHNKEAGASVESEKTAVSTKPASKGAETLKASPVSIPVYRTANQSVENIPLEEYVIGVVASEMPATFKPEALKAQALAARTFIVRLMVSNSAVEAPKGSLVDDTQMFQVYKSKAELKKQWGTSYETKLKKITDAVASTQGKILTYNNQPIEASFFSTSNGYTENAEAYWTSAIPYLKSVKSPWDKKSPKYKATKTFTAAEFQQKLGVKLDGSSAVGKITGETPGHQVATAVINGKTLKGRDIREKLGLNSADFEWKRNGDTITVTTRGFGHGVGMSQYGANFMAKEGKTVDDIVKYYYQGTQISEADAFLNKYMAKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	343 (270)
Sequences:	1480 (1221)
Seq/√Len:	74.3

BACSU - SP2D CWBA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
96_E	99_K	4.467	1.00
128_D	133_F	4.236	1.00
168_I	175_P	3.731	1.00
103_L	316_V	3.562	1.00
167_K	316_V	3.461	1.00
169_L	320_V	3.383	1.00
184_S	302_S	3.227	1.00
192_E	198_A	3.144	1.00
159_D	163_S	3.055	1.00
107_T	175_P	3.017	1.00
128_D	132_M	2.981	1.00
307_N	311_K	2.917	1.00
169_L	327_T	2.776	1.00
246_G	255_T	2.713	1.00
82_I	158_T	2.688	1.00
82_I	162_A	2.642	1.00
57_A	153_K	2.518	1.00
94_K	307_N	2.486	1.00
218_A	292_T	2.360	1.00
170_T	330_S	2.323	1.00
103_L	320_V	2.292	1.00
171_Y	200_P	2.231	1.00
210_D	302_S	2.164	1.00
187_Y	204_S	2.141	1.00
95_P	163_S	2.116	1.00
89_M	98_L	2.104	1.00
315_T	318_D	2.021	1.00
252_Q	298_G	2.021	1.00
189_E	193_A	1.998	1.00
305_G	323_Y	1.969	1.00
99_K	163_S	1.929	1.00
76_P	79_E	1.910	1.00
207_S	302_S	1.884	1.00
221_T	289_T	1.868	1.00
184_S	210_D	1.840	1.00
314_K	318_D	1.833	1.00
79_E	82_I	1.823	1.00
321_K	327_T	1.798	1.00
104_A	324_Y	1.783	1.00
167_K	317_D	1.783	1.00
95_P	159_D	1.766	1.00
281_W	290_V	1.743	1.00
169_L	329_I	1.701	1.00
93_F	304_Y	1.694	1.00
243_K	257_V	1.685	1.00
223_T	226_E	1.655	1.00
78_E	165_Q	1.632	1.00
87_S	137_K	1.622	1.00
106_R	164_T	1.609	0.99
190_N	193_A	1.590	0.99
104_A	301_M	1.588	0.99
187_Y	206_K	1.572	0.99
192_E	203_K	1.561	0.99
191_A	203_K	1.523	0.99
94_K	311_K	1.512	0.99
86_A	158_T	1.505	0.99
62_I	69_N	1.504	0.99
245_T	257_V	1.499	0.99
190_N	203_K	1.496	0.99
221_T	287_T	1.490	0.99
78_E	166_G	1.485	0.99
246_G	254_A	1.479	0.99
107_T	176_I	1.467	0.99
248_T	254_A	1.458	0.99
61_S	74_N	1.432	0.99
179_S	195_W	1.427	0.99
282_K	291_T	1.410	0.99
239_S	258_I	1.409	0.99
162_A	165_Q	1.401	0.99
317_D	321_K	1.396	0.99
219_T	291_T	1.396	0.99
181_F	188_T	1.394	0.99
255_T	262_T	1.394	0.99
188_T	205_V	1.390	0.98
253_V	256_A	1.384	0.98
109_I	127_V	1.362	0.98
275_N	295_F	1.325	0.98
189_E	248_T	1.324	0.98
215_K	275_N	1.324	0.98
321_K	328_Q	1.319	0.98
95_P	156_K	1.290	0.98
75_I	136_Y	1.279	0.97
309_M	314_K	1.275	0.97
99_K	316_V	1.257	0.97
181_F	185_N	1.257	0.97
253_V	279_F	1.253	0.97
167_K	331_E	1.238	0.97
198_A	203_K	1.220	0.97
81_V	161_V	1.211	0.96
173_N	330_S	1.201	0.96
263_L	268_I	1.196	0.96
252_Q	278_D	1.194	0.96
217_K	293_R	1.187	0.96
252_Q	277_A	1.186	0.96
86_A	157_I	1.177	0.96
80_Y	134_Q	1.167	0.95
111_R	177_E	1.166	0.95
181_F	184_S	1.148	0.95
171_Y	201_Y	1.143	0.95
170_T	328_Q	1.140	0.95
169_L	178_A	1.139	0.95
185_N	278_D	1.132	0.95
100_A	306_A	1.130	0.95
96_E	316_V	1.114	0.94
94_K	310_A	1.110	0.94
183_T	213_S	1.107	0.94
184_S	207_S	1.104	0.94
283_R	288_I	1.102	0.94
83_G	87_S	1.095	0.94
209_W	309_M	1.092	0.94
110_V	175_P	1.090	0.94
107_T	111_R	1.084	0.93
237_G	260_G	1.083	0.93
308_F	311_K	1.080	0.93
185_N	252_Q	1.078	0.93
108_F	182_S	1.077	0.93
207_S	210_D	1.072	0.93
183_T	216_Y	1.055	0.92
103_L	167_K	1.051	0.92
190_N	204_S	1.048	0.92
167_K	327_T	1.044	0.92
250_G	298_G	1.042	0.92
205_V	322_Y	1.040	0.92
281_W	288_I	1.026	0.91
318_D	321_K	1.017	0.91
116_N	133_F	1.015	0.91
78_E	106_R	1.010	0.91
309_M	312_E	1.009	0.91
89_M	97_A	0.995	0.90
228_Q	238_S	0.986	0.90
207_S	323_Y	0.979	0.89
193_A	249_P	0.977	0.89
98_L	160_A	0.964	0.88
95_P	160_A	0.959	0.88
242_G	258_I	0.956	0.88
264_K	267_D	0.956	0.88
226_E	229_Q	0.955	0.88
183_T	210_D	0.946	0.88
89_M	93_F	0.938	0.87
80_Y	84_V	0.936	0.87
85_V	90_P	0.933	0.87
189_E	252_Q	0.930	0.87
209_W	314_K	0.927	0.86
90_P	93_F	0.923	0.86
167_K	329_I	0.922	0.86
321_K	329_I	0.918	0.86
284_N	289_T	0.916	0.86
169_L	176_I	0.910	0.85
241_V	283_R	0.907	0.85
220_K	275_N	0.906	0.85
73_E	136_Y	0.906	0.85
116_N	128_D	0.904	0.85
192_E	196_T	0.904	0.85
308_F	312_E	0.901	0.85
297_H	303_Q	0.894	0.84
72_V	126_L	0.890	0.84
98_L	157_I	0.885	0.84
77_L	110_V	0.885	0.84
87_S	135_V	0.884	0.84
158_T	162_A	0.881	0.84
170_T	173_N	0.880	0.83
245_T	253_V	0.877	0.83
105_A	134_Q	0.876	0.83
65_Y	70_Q	0.876	0.83
103_L	317_D	0.876	0.83
306_A	310_A	0.875	0.83
111_R	174_Q	0.873	0.83
257_V	262_T	0.869	0.83
155_K	159_D	0.861	0.82
175_P	178_A	0.859	0.82
191_A	199_I	0.858	0.82
69_N	73_E	0.853	0.81
207_S	322_Y	0.850	0.81
219_T	289_T	0.849	0.81
309_M	322_Y	0.846	0.81
122_P	130_T	0.846	0.81
84_V	324_Y	0.845	0.81
227_F	288_I	0.844	0.81
75_I	286_D	0.842	0.81
111_R	175_P	0.839	0.80
227_F	230_K	0.839	0.80
95_P	99_K	0.838	0.80
240_A	261_K	0.836	0.80
85_V	157_I	0.834	0.80
101_Q	105_A	0.833	0.80
181_F	322_Y	0.825	0.79
200_P	326_G	0.825	0.79
266_R	270_E	0.823	0.79
241_V	259_N	0.819	0.79
113_M	180_F	0.819	0.79
243_K	259_N	0.816	0.79
112_L	115_S	0.815	0.78
101_Q	303_Q	0.813	0.78
60_V	71_S	0.810	0.78
244_I	253_V	0.809	0.78
250_G	277_A	0.809	0.78
231_L	258_I	0.808	0.78
105_A	180_F	0.806	0.78
64_V	68_A	0.804	0.78
57_A	79_E	0.803	0.77
178_A	327_T	0.803	0.77
49_S	53_E	0.803	0.77
73_E	138_S	0.802	0.77
84_V	164_T	0.798	0.77
280_E	293_R	0.797	0.77
89_M	304_Y	0.791	0.76
253_V	265_G	0.788	0.76
227_F	290_V	0.786	0.76
193_A	254_A	0.783	0.76
73_E	292_T	0.783	0.76
131_Q	295_F	0.782	0.76
228_Q	239_S	0.773	0.75
88_E	269_R	0.772	0.75
105_A	272_L	0.769	0.74
224_A	288_I	0.768	0.74
66_R	73_E	0.768	0.74
268_I	272_L	0.761	0.74
309_M	318_D	0.755	0.73
279_F	290_V	0.755	0.73
224_A	228_Q	0.754	0.73
88_E	297_H	0.751	0.73
225_A	318_D	0.749	0.72
85_V	105_A	0.747	0.72
321_K	325_Q	0.747	0.72
229_Q	233_V	0.743	0.72
176_I	324_Y	0.742	0.72
102_A	161_V	0.734	0.71
88_E	303_Q	0.731	0.71
104_A	320_V	0.731	0.71
51_G	54_T	0.731	0.71
320_V	327_T	0.730	0.70
84_V	106_R	0.728	0.70
189_E	250_G	0.723	0.70
230_K	271_K	0.722	0.70
80_Y	109_I	0.722	0.70
170_T	176_I	0.721	0.69
274_L	322_Y	0.707	0.68
90_P	307_N	0.706	0.68
100_A	310_A	0.705	0.68
153_K	158_T	0.704	0.68
125_S	129_D	0.704	0.68
228_Q	232_G	0.704	0.68
321_K	326_G	0.698	0.67
84_V	88_E	0.694	0.67
205_V	325_Q	0.692	0.66
184_S	188_T	0.686	0.66
69_N	282_K	0.683	0.65
248_T	265_G	0.681	0.65
69_N	138_S	0.674	0.64
83_G	139_K	0.673	0.64
116_N	132_M	0.672	0.64
184_S	248_T	0.671	0.64
183_T	215_K	0.668	0.64
278_D	293_R	0.667	0.63
171_Y	326_G	0.664	0.63
266_R	271_K	0.663	0.63
183_T	214_P	0.661	0.63
88_E	134_Q	0.660	0.63
222_F	272_L	0.657	0.62
182_S	213_S	0.657	0.62
225_A	229_Q	0.653	0.62
245_T	255_T	0.650	0.61
176_I	201_Y	0.648	0.61
107_T	178_A	0.645	0.61
194_Y	266_R	0.643	0.61
49_S	52_A	0.642	0.61
135_V	182_S	0.641	0.60
190_N	198_A	0.641	0.60
171_Y	202_L	0.641	0.60
209_W	308_F	0.641	0.60
130_T	135_V	0.640	0.60
258_I	263_L	0.639	0.60
276_S	294_G	0.639	0.60
82_I	153_K	0.638	0.60
237_G	261_K	0.637	0.60
247_E	280_E	0.635	0.60
322_Y	325_Q	0.632	0.59
238_S	261_K	0.632	0.59
81_V	292_T	0.632	0.59
51_G	55_L	0.631	0.59
93_F	307_N	0.630	0.59
191_A	198_A	0.630	0.59
84_V	105_A	0.629	0.59
98_L	275_N	0.628	0.59
222_F	290_V	0.627	0.59
58_S	136_Y	0.626	0.59
179_S	202_L	0.622	0.58
56_K	292_T	0.619	0.58
62_I	71_S	0.619	0.58
156_K	159_D	0.618	0.58
57_A	82_I	0.616	0.57
183_T	268_I	0.616	0.57
58_S	73_E	0.613	0.57
84_V	127_V	0.613	0.57
228_Q	231_L	0.612	0.57
125_S	128_D	0.612	0.57
213_S	216_Y	0.611	0.57
239_S	283_R	0.608	0.56
108_F	179_S	0.608	0.56
114_V	175_P	0.607	0.56
102_A	160_A	0.607	0.56
81_V	109_I	0.607	0.56
182_S	295_F	0.607	0.56
317_D	329_I	0.605	0.56
112_L	127_V	0.604	0.56
113_M	127_V	0.603	0.56
110_V	168_I	0.600	0.55
220_K	290_V	0.597	0.55
78_E	164_T	0.597	0.55
289_T	301_M	0.595	0.55
188_T	204_S	0.592	0.54
169_L	321_K	0.592	0.54
136_Y	181_F	0.592	0.54
225_A	243_K	0.591	0.54
77_L	109_I	0.590	0.54
131_Q	230_K	0.590	0.54
155_K	158_T	0.588	0.54
59_P	258_I	0.584	0.53
218_A	239_S	0.583	0.53
90_P	184_S	0.582	0.53
229_Q	240_A	0.581	0.53
314_K	322_Y	0.579	0.53
182_S	304_Y	0.578	0.53
217_K	247_E	0.576	0.52
185_N	292_T	0.574	0.52
268_I	279_F	0.573	0.52
168_I	329_I	0.573	0.52
228_Q	242_G	0.573	0.52
58_S	138_S	0.572	0.52
87_S	131_Q	0.571	0.52
224_A	283_R	0.566	0.51
213_S	304_Y	0.566	0.51
112_L	133_F	0.565	0.51
239_S	242_G	0.564	0.51
111_R	114_V	0.564	0.51
220_K	273_G	0.564	0.51
82_I	108_F	0.560	0.50
199_I	202_L	0.559	0.50
92_T	98_L	0.559	0.50
268_I	274_L	0.558	0.50
224_A	239_S	0.554	0.50
325_Q	331_E	0.554	0.50
116_N	124_G	0.553	0.50
284_N	287_T	0.553	0.50
81_V	260_G	0.553	0.50
281_W	313_G	0.553	0.50
56_K	73_E	0.552	0.49
256_A	272_L	0.551	0.49
113_M	174_Q	0.551	0.49
84_V	134_Q	0.549	0.49
320_V	329_I	0.549	0.49
220_K	256_A	0.546	0.49
101_Q	135_V	0.546	0.49
269_R	297_H	0.545	0.49
281_W	332_A	0.544	0.48
326_G	329_I	0.544	0.48
91_A	153_K	0.544	0.48
265_G	277_A	0.541	0.48
176_I	179_S	0.541	0.48
97_A	310_A	0.540	0.48
208_P	211_K	0.540	0.48
107_T	168_I	0.540	0.48
231_L	237_G	0.540	0.48
123_K	128_D	0.539	0.48
277_A	298_G	0.538	0.48
214_P	304_Y	0.537	0.48
82_I	161_V	0.536	0.47
97_A	100_A	0.534	0.47
129_D	133_F	0.532	0.47
228_Q	237_G	0.531	0.47
72_V	124_G	0.528	0.46
203_K	325_Q	0.528	0.46
69_N	292_T	0.527	0.46
247_E	253_V	0.526	0.46
132_M	169_L	0.526	0.46
235_L	271_K	0.526	0.46
65_Y	125_S	0.525	0.46
81_V	86_A	0.524	0.46
88_E	136_Y	0.522	0.46
190_N	196_T	0.521	0.46
213_S	308_F	0.520	0.45
63_P	72_V	0.519	0.45
128_D	179_S	0.516	0.45
269_R	303_Q	0.515	0.45
80_Y	106_R	0.515	0.45
299_V	305_G	0.512	0.44
113_M	116_N	0.511	0.44
153_K	157_I	0.509	0.44
134_Q	303_Q	0.509	0.44
97_A	101_Q	0.508	0.44
105_A	248_T	0.507	0.44
219_T	286_D	0.506	0.44
201_Y	326_G	0.505	0.44
222_F	287_T	0.505	0.44
180_F	303_Q	0.505	0.44
138_S	292_T	0.505	0.44
88_E	182_S	0.504	0.43
116_N	123_K	0.503	0.43
74_N	332_A	0.503	0.43
155_K	219_T	0.502	0.43
124_G	197_S	0.502	0.43
239_S	292_T	0.501	0.43
122_P	132_M	0.501	0.43
85_V	102_A	0.500	0.43
298_G	303_Q	0.500	0.43

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
4rwrA	1	0.7843	100	0.172	Contact Map
3behA	3	0.2915	18.1	0.974	Contact Map
1n7lA	1	0.0729	8.6	0.977	Contact Map
4ff5A	1	0.5335	6.9	0.978	Contact Map
5a2fA	1	0	6.3	0.979	Contact Map
4kytB	2	0.0641	5.4	0.979	Contact Map
4y3uB	1	0.0671	5.2	0.979	Contact Map
3oigA	4	0.1808	5.2	0.979	Contact Map
1fmhB	1	0.0845	5.1	0.98	Contact Map
3d1pA	1	0.2974	5	0.98	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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