SDPB - BACSU - GREMLIN Contacts

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SDPB - Sporulation-delaying protein SdpB

UniProt:	O34616	Sequences: MKILNSLEGYIDTYNPWKNTYALFRSLLGFSTLLVLLFNSTDILFSYSANNVTCENVYIPTAFCFAKEYSINFEIIRYLMIFILTLVVIGWRPRFTGLFHWYICYSIQTSALTIDGGEQIATVLSFLILPVTLLDSRRNHWNIKKNNNESFTKKTVLFYIMTIIKIQVFIIYLNAALERLKNKEWAEGTAIYYFFSDPVFGLPEYQLNLMNPLLESNFIVVITWLVTIFELFLAASIISNIRIKRIALVLGILFHIGIIFSIGIVSFGLIMISALIIYLHPVQQNITMNWCSPLFKYIYVKGKRNFKRIGGESVKFLTKLFHS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (274)
Sequences:	930 (718)
Seq/√Len:	43.4

BACSU - SDPB YITO
HALSA - Q9HR62

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
89_I	141_W	5.279	1.00
29_G	88_V	4.315	1.00
120_I	171_I	4.240	1.00
86_L	96_T	4.101	1.00
32_T	100_H	3.883	1.00
172_Y	255_H	3.469	1.00
33_L	88_V	3.370	1.00
141_W	144_K	3.281	1.00
85_T	89_I	3.106	1.00
98_L	129_L	3.082	1.00
33_L	81_I	2.739	1.00
126_F	129_L	2.730	1.00
146_N	150_S	2.714	1.00
86_L	89_I	2.630	1.00
93_P	134_L	2.534	1.00
87_V	100_H	2.532	1.00
83_I	99_F	2.509	1.00
93_P	142_N	2.483	1.00
30_F	88_V	2.473	1.00
134_L	142_N	2.462	1.00
171_I	271_M	2.397	1.00
251_G	275_L	2.386	1.00
93_P	140_H	2.341	1.00
100_H	125_S	2.220	1.00
162_T	165_K	2.206	1.00
92_R	145_K	2.125	0.99
286_I	290_W	2.097	0.99
180_L	227_T	2.091	0.99
83_I	96_T	2.019	0.99
141_W	145_K	2.011	0.99
176_A	231_L	1.986	0.99
101_W	126_F	1.953	0.99
222_I	257_G	1.925	0.99
63_F	76_I	1.900	0.99
33_L	85_T	1.897	0.99
254_F	258_I	1.847	0.99
168_V	275_L	1.765	0.98
116_G	267_F	1.763	0.98
44_L	49_A	1.743	0.98
191_I	222_I	1.719	0.98
126_F	130_P	1.714	0.98
233_L	251_G	1.653	0.97
21_Y	180_L	1.616	0.97
85_T	88_V	1.610	0.97
61_T	106_S	1.595	0.96
116_G	264_I	1.579	0.96
27_L	273_S	1.572	0.96
87_V	97_G	1.567	0.96
243_I	247_A	1.566	0.96
190_A	194_F	1.557	0.96
254_F	268_G	1.555	0.96
266_S	270_I	1.532	0.95
26_S	140_H	1.528	0.95
123_V	127_L	1.524	0.95
29_G	84_L	1.520	0.95
14_Y	158_F	1.509	0.95
97_G	129_L	1.491	0.95
18_K	22_A	1.462	0.94
91_W	141_W	1.462	0.94
226_V	230_E	1.455	0.94
289_N	293_P	1.443	0.94
17_W	20_T	1.398	0.92
173_L	231_L	1.360	0.91
87_V	125_S	1.355	0.91
91_W	145_K	1.350	0.91
110_S	113_T	1.349	0.91
158_F	162_T	1.346	0.91
83_I	86_L	1.344	0.91
188_G	220_V	1.337	0.91
33_L	242_R	1.323	0.90
93_P	97_G	1.316	0.90
240_N	243_I	1.309	0.90
290_W	294_L	1.307	0.90
207_L	210_M	1.302	0.90
273_S	277_I	1.295	0.89
255_H	258_I	1.287	0.89
192_Y	196_S	1.283	0.89
180_L	261_S	1.283	0.89
87_V	134_L	1.271	0.88
164_I	211_N	1.257	0.88
105_Y	122_T	1.244	0.87
244_K	267_F	1.235	0.87
32_T	125_S	1.229	0.87
168_V	274_A	1.228	0.87
182_N	194_F	1.223	0.86
242_R	245_R	1.211	0.86
77_R	81_I	1.206	0.86
18_K	138_R	1.199	0.85
101_W	129_L	1.189	0.85
230_E	254_F	1.180	0.84
80_M	103_I	1.179	0.84
259_I	264_I	1.178	0.84
245_R	279_L	1.177	0.84
26_S	88_V	1.169	0.84
11_I	162_T	1.163	0.83
252_I	272_I	1.157	0.83
130_P	260_F	1.148	0.83
84_L	100_H	1.138	0.82
31_S	266_S	1.138	0.82
179_R	230_E	1.137	0.82
246_I	250_L	1.128	0.81
86_L	99_F	1.126	0.81
22_A	26_S	1.119	0.81
200_F	262_I	1.118	0.81
292_S	295_F	1.112	0.81
216_S	260_F	1.107	0.80
233_L	275_L	1.106	0.80
18_K	137_R	1.092	0.79
20_T	284_Q	1.090	0.79
146_N	151_F	1.089	0.79
76_I	106_S	1.085	0.79
20_T	233_L	1.079	0.78
36_L	125_S	1.077	0.78
171_I	274_A	1.066	0.78
172_Y	267_F	1.062	0.77
253_L	257_G	1.061	0.77
38_F	42_D	1.057	0.77
172_Y	271_M	1.057	0.77
15_N	155_T	1.039	0.76
29_G	87_V	1.038	0.76
291_C	294_L	1.036	0.76
169_F	273_S	1.035	0.75
241_I	245_R	1.027	0.75
36_L	80_M	1.020	0.74
290_W	293_P	1.019	0.74
120_I	167_Q	1.019	0.74
287_T	291_C	1.018	0.74
130_P	140_H	1.013	0.74
283_Q	287_T	1.013	0.74
166_I	218_F	1.004	0.73
244_K	265_V	1.001	0.73
101_W	125_S	0.997	0.73
28_L	125_S	0.996	0.73
225_L	249_V	0.993	0.72
124_L	274_A	0.992	0.72
93_P	100_H	0.991	0.72
93_P	133_L	0.988	0.72
11_I	165_K	0.985	0.72
249_V	253_L	0.971	0.71
143_I	151_F	0.970	0.71
126_F	225_L	0.968	0.70
264_I	267_F	0.961	0.70
175_A	226_V	0.948	0.69
42_D	118_E	0.946	0.69
156_V	160_I	0.939	0.68
28_L	32_T	0.932	0.68
282_V	286_I	0.928	0.67
19_N	139_N	0.927	0.67
33_L	75_I	0.922	0.67
256_I	272_I	0.917	0.66
106_S	117_G	0.912	0.66
229_F	251_G	0.907	0.65
190_A	223_T	0.895	0.64
137_R	140_H	0.884	0.63
43_I	74_E	0.883	0.63
76_I	83_I	0.880	0.63
77_R	107_I	0.876	0.63
115_D	230_E	0.873	0.62
164_I	174_N	0.871	0.62
283_Q	286_I	0.870	0.62
116_G	167_Q	0.870	0.62
79_L	150_S	0.869	0.62
37_L	83_I	0.863	0.61
96_T	99_F	0.861	0.61
116_G	262_I	0.861	0.61
127_L	163_I	0.860	0.61
119_Q	262_I	0.859	0.61
128_I	133_L	0.859	0.61
116_G	271_M	0.858	0.61
256_I	294_L	0.858	0.61
69_Y	112_L	0.857	0.61
52_V	56_N	0.850	0.60
230_E	233_L	0.849	0.60
106_S	110_S	0.848	0.60
17_W	285_N	0.847	0.60
134_L	140_H	0.847	0.60
285_N	288_M	0.844	0.60
24_F	47_Y	0.842	0.60
116_G	119_Q	0.842	0.60
47_Y	219_I	0.839	0.59
88_V	221_V	0.836	0.59
229_F	237_I	0.832	0.59
112_L	197_D	0.830	0.58
232_F	236_S	0.829	0.58
79_L	146_N	0.827	0.58
137_R	141_W	0.827	0.58
17_W	21_Y	0.825	0.58
229_F	253_L	0.823	0.58
125_S	225_L	0.817	0.57
38_F	60_P	0.813	0.57
134_L	151_F	0.812	0.57
29_G	268_G	0.812	0.57
251_G	258_I	0.811	0.57
189_T	267_F	0.811	0.57
282_V	285_N	0.810	0.57
104_C	108_Q	0.807	0.56
248_L	279_L	0.807	0.56
48_S	81_I	0.803	0.56
36_L	107_I	0.802	0.56
137_R	143_I	0.801	0.56
143_I	177_L	0.798	0.55
280_H	283_Q	0.794	0.55
92_R	96_T	0.794	0.55
89_I	129_L	0.789	0.55
123_V	175_A	0.785	0.54
101_W	122_T	0.784	0.54
182_N	190_A	0.780	0.54
187_E	250_L	0.778	0.54
21_Y	140_H	0.778	0.54
226_V	254_F	0.775	0.53
85_T	289_N	0.772	0.53
165_K	277_I	0.771	0.53
82_F	86_L	0.770	0.53
161_M	164_I	0.770	0.53
66_A	75_I	0.768	0.53
26_S	238_I	0.765	0.52
115_D	265_V	0.761	0.52
36_L	139_N	0.760	0.52
200_F	268_G	0.754	0.51
21_Y	244_K	0.754	0.51
137_R	146_N	0.753	0.51
146_N	149_E	0.752	0.51
168_V	290_W	0.751	0.51
31_S	273_S	0.749	0.51
164_I	287_T	0.744	0.50
195_F	256_I	0.742	0.50
36_L	100_H	0.741	0.50
98_L	289_N	0.740	0.50
115_D	263_G	0.739	0.50
21_Y	25_R	0.734	0.49
86_L	97_G	0.732	0.49
230_E	268_G	0.730	0.49
116_G	230_E	0.728	0.49
22_A	138_R	0.723	0.48
78_Y	127_L	0.721	0.48
130_P	134_L	0.720	0.48
145_K	282_V	0.719	0.48
89_I	286_I	0.717	0.48
63_F	183_K	0.716	0.48
176_A	191_I	0.712	0.47
220_V	264_I	0.710	0.47
258_I	262_I	0.709	0.47
20_T	161_M	0.707	0.47
172_Y	188_G	0.702	0.46
218_F	270_I	0.700	0.46
170_I	282_V	0.694	0.46
84_L	121_A	0.690	0.45
258_I	268_G	0.690	0.45
208_N	211_N	0.689	0.45
116_G	258_I	0.689	0.45
104_C	226_V	0.687	0.45
91_W	134_L	0.687	0.45
97_G	130_P	0.685	0.45
115_D	258_I	0.685	0.45
254_F	257_G	0.684	0.45
220_V	228_I	0.681	0.44
29_G	101_W	0.680	0.44
249_V	291_C	0.680	0.44
128_I	231_L	0.678	0.44
51_N	249_V	0.677	0.44
138_R	287_T	0.673	0.44
124_L	168_V	0.672	0.43
34_L	88_V	0.671	0.43
149_E	209_L	0.669	0.43
163_I	191_I	0.669	0.43
261_S	271_M	0.665	0.43
253_L	262_I	0.662	0.43
39_N	118_E	0.657	0.42
193_Y	223_T	0.654	0.42
262_I	280_H	0.654	0.42
120_I	124_L	0.654	0.42
289_N	292_S	0.653	0.42
39_N	47_Y	0.650	0.41
30_F	62_A	0.650	0.41
22_A	142_N	0.647	0.41
158_F	285_N	0.645	0.41
179_R	255_H	0.645	0.41
129_L	137_R	0.645	0.41
222_I	273_S	0.644	0.41
90_G	142_N	0.643	0.41
161_M	165_K	0.642	0.41
186_A	238_I	0.641	0.41
93_P	141_W	0.640	0.41
105_Y	109_T	0.640	0.41
118_E	258_I	0.637	0.40
26_S	142_N	0.634	0.40
40_S	43_I	0.633	0.40
15_N	19_N	0.632	0.40
228_I	287_T	0.632	0.40
35_V	39_N	0.631	0.40
255_H	278_Y	0.631	0.40
95_F	99_F	0.631	0.40
91_W	144_K	0.628	0.39
158_F	199_V	0.628	0.39
175_A	230_E	0.625	0.39
177_L	180_L	0.625	0.39
138_R	221_V	0.625	0.39
265_V	268_G	0.625	0.39
117_G	167_Q	0.623	0.39
255_H	264_I	0.623	0.39
259_I	269_L	0.622	0.39
53_T	59_I	0.621	0.39
235_A	238_I	0.620	0.39
22_A	144_K	0.620	0.39
33_L	145_K	0.618	0.39
91_W	142_N	0.618	0.39
52_V	55_E	0.614	0.38
109_T	117_G	0.614	0.38
78_Y	242_R	0.612	0.38
46_S	107_I	0.612	0.38
140_H	145_K	0.611	0.38
63_F	73_F	0.610	0.38
188_G	219_I	0.608	0.38
121_A	210_M	0.608	0.38
89_I	187_E	0.607	0.38
153_K	156_V	0.606	0.37
144_K	151_F	0.605	0.37
183_K	191_I	0.603	0.37
195_F	276_I	0.603	0.37
175_A	202_L	0.602	0.37
289_N	294_L	0.602	0.37
32_T	84_L	0.600	0.37
96_T	130_P	0.599	0.37
237_I	271_M	0.598	0.37
117_G	268_G	0.598	0.37
163_I	166_I	0.598	0.37
169_F	173_L	0.597	0.37
171_I	267_F	0.595	0.36
23_L	289_N	0.592	0.36
39_N	271_M	0.591	0.36
37_L	81_I	0.589	0.36
23_L	86_L	0.589	0.36
14_Y	249_V	0.587	0.36
82_F	294_L	0.582	0.35
121_A	288_M	0.581	0.35
92_R	141_W	0.580	0.35
143_I	152_T	0.580	0.35
14_Y	19_N	0.578	0.35
127_L	167_Q	0.578	0.35
208_N	215_E	0.577	0.35
245_R	249_V	0.577	0.35
88_V	286_I	0.576	0.35
160_I	163_I	0.576	0.35
85_T	149_E	0.575	0.35
29_G	90_G	0.574	0.35
260_F	263_G	0.573	0.35
54_C	57_V	0.573	0.35
49_A	169_F	0.572	0.34
203_P	280_H	0.570	0.34
103_I	161_M	0.570	0.34
164_I	252_I	0.566	0.34
30_F	253_L	0.566	0.34
92_R	98_L	0.564	0.34
32_T	87_V	0.563	0.34
151_F	291_C	0.563	0.34
152_T	249_V	0.561	0.34
62_A	288_M	0.560	0.33
142_N	145_K	0.560	0.33
58_Y	129_L	0.558	0.33
118_E	276_I	0.555	0.33
267_F	273_S	0.553	0.33
95_F	152_T	0.553	0.33
286_I	295_F	0.550	0.33
97_G	132_T	0.548	0.32
192_Y	223_T	0.547	0.32
164_I	278_Y	0.547	0.32
19_N	285_N	0.547	0.32
236_S	243_I	0.546	0.32
194_F	226_V	0.545	0.32
33_L	125_S	0.544	0.32
32_T	83_I	0.543	0.32
232_F	282_V	0.542	0.32
94_R	142_N	0.541	0.32
77_R	80_M	0.540	0.32
82_F	85_T	0.539	0.32
114_I	117_G	0.539	0.32
108_Q	118_E	0.537	0.31
291_C	295_F	0.530	0.31
230_E	258_I	0.530	0.31
124_L	275_L	0.529	0.31
126_F	173_L	0.529	0.31
154_K	256_I	0.529	0.31
123_V	254_F	0.527	0.31
232_F	235_A	0.527	0.31
35_V	251_G	0.526	0.31
128_I	285_N	0.524	0.30
108_Q	122_T	0.524	0.30
175_A	254_F	0.524	0.30
167_Q	171_I	0.523	0.30
122_T	126_F	0.521	0.30
236_S	244_K	0.519	0.30
33_L	168_V	0.518	0.30
149_E	221_V	0.518	0.30
89_I	290_W	0.517	0.30
228_I	232_F	0.515	0.30
206_Q	241_I	0.515	0.30
146_N	289_N	0.514	0.30
208_N	217_N	0.513	0.30
82_F	95_F	0.512	0.29
11_I	177_L	0.511	0.29
14_Y	151_F	0.510	0.29
290_W	295_F	0.510	0.29
91_W	263_G	0.508	0.29
226_V	258_I	0.507	0.29
103_I	107_I	0.506	0.29
79_L	215_E	0.505	0.29
75_I	289_N	0.504	0.29
175_A	258_I	0.503	0.29
197_D	203_P	0.503	0.29
60_P	115_D	0.502	0.29
111_A	175_A	0.500	0.29

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
2l16A	1	0.1579	12.6	0.962	Contact Map
2mn6B	2	0.1393	8.2	0.965	Contact Map
2mi2A	1	0.192	3.7	0.97	Contact Map
4h33A	3	0.2724	3	0.972	Contact Map
2y69J	1	0.0433	1.6	0.976	Contact Map
2lzrA	1	0.1486	1.4	0.977	Contact Map
3pjsK	4	0.4118	1.3	0.977	Contact Map
1j2jB	1	0.1269	1.1	0.978	Contact Map
1bm4A	1	0.0774	1.1	0.978	Contact Map
3v9rB	1	0.1115	1	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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