SP4FA - BACSU - GREMLIN Contacts

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SP4FA - Stage IV sporulation protein FA

UniProt:	P26936	Sequences: MSHRADEIRKRLEKRRKQLSGSKRFSTQTVSEKQKPPSWVMVTDQEKHGTLPVYEDNMPTFNGKHPLVKTDSIILKCLLSACLVLVSAIAYKTNIGPVSQIKPAVAKTFETEFQFASASHWFETKFGNPLAFLAPEHKNKEQQIEVGKDLIAPASGKVQQDFQDNGEGIKVETSSDKIDSVKEGYVVEVSKDSQTGLTVKVQHADNTYSIYGELKDVDVALYDFVDKGKKLGSIKLDDHNKGVYYFAMKDGDKFIDPIQVISFE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	264 (226)
Sequences:	4114 (3734)
Seq/√Len:	248.4

ECOLI - MEPM ENVC NLPD YGER
BACSU - SP4FA LYTH SP2Q

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
214_L	232_G	3.996	1.00
189_V	217_V	3.796	1.00
173_T	234_I	3.288	1.00
203_H	209_S	3.220	1.00
218_D	233_S	3.166	1.00
236_L	239_H	3.115	1.00
178_I	214_L	2.927	1.00
161_D	258_I	2.791	1.00
159_Q	172_E	2.734	1.00
177_K	230_K	2.721	1.00
152_A	171_V	2.646	1.00
181_V	246_F	2.576	1.00
175_S	242_G	2.451	1.00
183_E	226_D	2.266	1.00
162_F	254_F	2.224	1.00
185_Y	224_F	2.208	1.00
151_I	227_K	2.187	1.00
180_S	201_V	2.145	1.00
105_V	109_F	2.050	1.00
195_T	212_G	1.989	1.00
219_V	223_D	1.938	1.00
167_E	247_A	1.923	1.00
214_L	217_V	1.809	1.00
110_E	114_Q	1.774	1.00
107_K	111_T	1.737	1.00
178_I	234_I	1.682	1.00
104_A	108_T	1.674	1.00
230_K	233_S	1.662	1.00
112_E	116_A	1.659	1.00
108_T	112_E	1.650	1.00
201_V	231_L	1.644	1.00
78_L	82_C	1.642	1.00
200_K	210_I	1.619	1.00
207_T	250_D	1.617	1.00
187_V	208_Y	1.615	1.00
114_Q	118_A	1.614	1.00
209_S	248_M	1.611	1.00
157_K	172_E	1.605	1.00
121_W	125_K	1.603	1.00
181_V	209_S	1.600	1.00
116_A	119_S	1.581	1.00
111_T	114_Q	1.578	1.00
109_F	113_F	1.556	1.00
121_W	124_T	1.555	1.00
111_T	115_F	1.540	1.00
173_T	176_D	1.537	1.00
106_A	110_E	1.507	1.00
38_S	41_M	1.506	1.00
170_K	245_Y	1.501	1.00
179_D	230_K	1.493	1.00
226_D	229_K	1.486	1.00
220_A	223_D	1.454	1.00
118_A	121_W	1.444	1.00
199_V	214_L	1.430	1.00
130_L	134_A	1.425	1.00
200_K	208_Y	1.408	1.00
187_V	202_Q	1.397	1.00
234_I	242_G	1.330	1.00
212_G	247_A	1.327	1.00
115_F	119_S	1.317	1.00
119_S	123_E	1.312	1.00
181_V	211_Y	1.311	1.00
166_G	170_K	1.282	1.00
156_G	171_V	1.267	1.00
120_H	124_T	1.256	1.00
175_S	215_K	1.255	1.00
182_K	227_K	1.253	1.00
219_V	229_K	1.250	1.00
131_A	135_P	1.247	1.00
199_V	231_L	1.225	1.00
218_D	232_G	1.219	1.00
98_V	102_K	1.215	1.00
62_N	66_P	1.199	1.00
234_I	244_Y	1.198	1.00
117_S	120_H	1.197	1.00
94_N	98_V	1.190	1.00
249_K	254_F	1.173	1.00
169_I	258_I	1.173	1.00
35_K	39_W	1.161	1.00
170_K	243_V	1.157	1.00
56_D	59_P	1.157	1.00
60_T	64_K	1.150	1.00
103_P	107_K	1.145	1.00
132_F	135_P	1.131	1.00
109_F	112_E	1.125	1.00
198_T	210_I	1.123	1.00
91_Y	94_N	1.111	1.00
118_A	122_F	1.106	1.00
108_T	111_T	1.103	1.00
78_L	81_A	1.097	1.00
192_D	198_T	1.097	1.00
106_A	109_F	1.096	1.00
64_K	68_V	1.096	1.00
70_T	73_I	1.096	1.00
99_S	102_K	1.094	1.00
39_W	43_T	1.091	1.00
90_A	94_N	1.091	1.00
117_S	121_W	1.090	1.00
113_F	117_S	1.087	1.00
166_G	243_V	1.079	1.00
216_D	233_S	1.077	1.00
97_P	101_I	1.076	1.00
160_Q	166_G	1.071	1.00
93_T	97_P	1.071	1.00
256_D	259_Q	1.066	1.00
46_E	50_T	1.066	1.00
114_Q	117_S	1.062	1.00
105_V	108_T	1.058	1.00
68_V	71_D	1.058	1.00
131_A	134_A	1.056	1.00
94_N	97_P	1.046	1.00
198_T	212_G	1.042	1.00
49_G	53_V	1.038	1.00
55_E	59_P	1.035	1.00
195_T	247_A	1.028	1.00
53_V	57_N	1.024	1.00
36_P	40_V	1.019	1.00
91_Y	95_I	1.019	1.00
188_E	198_T	0.993	1.00
82_C	85_L	0.992	1.00
76_K	80_S	0.984	1.00
71_D	75_L	0.974	1.00
191_K	197_L	0.971	1.00
164_D	238_D	0.968	1.00
170_K	213_E	0.967	1.00
155_S	179_D	0.964	1.00
126_F	130_L	0.963	1.00
101_I	105_V	0.959	1.00
176_D	234_I	0.948	1.00
158_V	169_I	0.948	1.00
80_S	83_L	0.941	1.00
34_Q	38_S	0.940	1.00
54_Y	58_M	0.936	1.00
177_K	233_S	0.935	1.00
97_P	100_Q	0.923	1.00
185_Y	202_Q	0.921	1.00
45_Q	48_H	0.918	1.00
90_A	93_T	0.918	1.00
60_T	63_G	0.917	1.00
213_E	237_D	0.916	1.00
152_A	261_I	0.912	1.00
120_H	123_E	0.911	1.00
218_D	230_K	0.911	1.00
188_E	200_K	0.906	1.00
194_Q	212_G	0.902	1.00
95_I	99_S	0.898	1.00
67_L	71_D	0.896	1.00
47_K	50_T	0.896	1.00
154_A	171_V	0.893	1.00
86_V	90_A	0.892	1.00
49_G	52_P	0.891	1.00
152_A	155_S	0.882	1.00
150_L	207_T	0.880	1.00
123_E	126_F	0.879	1.00
169_I	261_I	0.877	1.00
207_T	248_M	0.875	1.00
30_V	33_K	0.874	1.00
92_K	96_G	0.872	0.99
255_I	260_V	0.867	0.99
96_G	100_Q	0.861	0.99
101_I	104_A	0.861	0.99
59_P	62_N	0.860	0.99
184_G	201_V	0.860	0.99
56_D	60_T	0.859	0.99
43_T	46_E	0.857	0.99
43_T	47_K	0.856	0.99
236_L	240_N	0.854	0.99
130_L	133_L	0.850	0.99
73_I	77_C	0.845	0.99
154_A	173_T	0.841	0.99
198_T	214_L	0.839	0.99
215_K	233_S	0.837	0.99
89_I	92_K	0.833	0.99
52_P	56_D	0.832	0.99
33_K	36_P	0.823	0.99
57_N	61_F	0.823	0.99
195_T	210_I	0.821	0.99
81_A	85_L	0.820	0.99
37_P	41_M	0.818	0.99
247_A	254_F	0.813	0.99
107_K	110_E	0.812	0.99
51_L	54_Y	0.810	0.99
110_E	113_F	0.809	0.99
236_L	242_G	0.805	0.99
202_Q	206_N	0.801	0.99
40_V	43_T	0.798	0.99
195_T	249_K	0.797	0.99
67_L	70_T	0.797	0.99
250_D	255_I	0.791	0.99
87_S	91_Y	0.791	0.99
38_S	42_V	0.784	0.99
92_K	95_I	0.775	0.99
46_E	49_G	0.775	0.99
167_E	254_F	0.770	0.99
52_P	55_E	0.766	0.99
66_P	69_K	0.765	0.99
183_E	227_K	0.764	0.99
41_M	45_Q	0.760	0.99
77_C	80_S	0.758	0.99
63_G	66_P	0.755	0.99
160_Q	163_Q	0.746	0.98
79_L	82_C	0.742	0.98
35_K	38_S	0.738	0.98
161_D	256_D	0.736	0.98
48_H	51_L	0.733	0.98
42_V	46_E	0.731	0.98
88_A	92_K	0.728	0.98
104_A	107_K	0.726	0.98
69_K	73_I	0.726	0.98
196_G	235_K	0.725	0.98
143_Q	146_V	0.719	0.98
122_F	126_F	0.719	0.98
85_L	89_I	0.717	0.98
115_F	118_A	0.712	0.98
79_L	83_L	0.712	0.98
48_H	52_P	0.711	0.98
143_Q	147_G	0.708	0.98
214_L	244_Y	0.703	0.98
51_L	55_E	0.701	0.98
33_K	37_P	0.699	0.98
213_E	239_H	0.699	0.98
45_Q	49_G	0.696	0.98
83_L	86_V	0.695	0.98
61_F	64_K	0.694	0.97
199_V	219_V	0.691	0.97
74_I	78_L	0.690	0.97
112_E	119_S	0.690	0.97
103_P	106_A	0.690	0.97
50_T	54_Y	0.686	0.97
158_V	258_I	0.686	0.97
159_Q	241_K	0.683	0.97
89_I	93_T	0.682	0.97
36_P	39_W	0.681	0.97
119_S	122_F	0.679	0.97
188_E	192_D	0.674	0.97
98_V	101_I	0.672	0.97
40_V	44_D	0.671	0.97
113_F	116_A	0.668	0.97
66_P	70_T	0.666	0.97
77_C	81_A	0.665	0.97
95_I	98_V	0.660	0.97
59_P	63_G	0.660	0.97
50_T	53_V	0.657	0.97
84_V	87_S	0.654	0.96
116_A	120_H	0.653	0.96
214_L	218_D	0.651	0.96
151_I	181_V	0.650	0.96
209_S	246_F	0.647	0.96
70_T	74_I	0.643	0.96
88_A	98_V	0.641	0.96
54_Y	57_N	0.636	0.96
154_A	234_I	0.632	0.96
195_T	198_T	0.629	0.96
171_V	261_I	0.627	0.95
159_Q	243_V	0.626	0.95
42_V	45_Q	0.624	0.95
63_G	67_L	0.622	0.95
208_Y	249_K	0.619	0.95
210_I	249_K	0.618	0.95
93_T	96_G	0.618	0.95
212_G	249_K	0.616	0.95
73_I	76_K	0.614	0.95
72_S	76_K	0.614	0.95
60_T	67_L	0.612	0.95
197_L	217_V	0.611	0.95
85_L	88_A	0.606	0.95
202_Q	208_Y	0.606	0.95
183_E	224_F	0.604	0.94
166_G	213_E	0.604	0.94
93_T	98_V	0.600	0.94
65_H	68_V	0.600	0.94
150_L	182_K	0.600	0.94
158_V	161_D	0.595	0.94
169_I	257_P	0.595	0.94
182_K	203_H	0.594	0.94
154_A	176_D	0.591	0.94
203_H	211_Y	0.591	0.94
67_L	74_I	0.589	0.94
149_D	182_K	0.584	0.93
235_K	243_V	0.580	0.93
147_G	182_K	0.580	0.93
88_A	91_Y	0.578	0.93
115_F	122_F	0.577	0.93
100_Q	103_P	0.573	0.93
50_T	81_A	0.573	0.93
61_F	65_H	0.570	0.93
178_I	232_G	0.564	0.92
72_S	75_L	0.563	0.92
151_I	179_D	0.563	0.92
57_N	60_T	0.563	0.92
213_E	245_Y	0.562	0.92
214_L	234_I	0.560	0.92
164_D	167_E	0.560	0.92
83_L	87_S	0.559	0.92
182_K	207_T	0.558	0.92
210_I	247_A	0.557	0.92
58_M	62_N	0.552	0.91
80_S	84_V	0.552	0.91
192_D	200_K	0.551	0.91
96_G	99_S	0.551	0.91
99_S	103_P	0.551	0.91
166_G	245_Y	0.551	0.91
35_K	77_C	0.550	0.91
156_G	248_M	0.548	0.91
172_E	241_K	0.548	0.91
160_Q	165_N	0.548	0.91
34_Q	37_P	0.546	0.91
146_V	182_K	0.545	0.91
211_Y	246_F	0.545	0.91
57_N	64_K	0.543	0.91
75_L	79_L	0.542	0.91
135_P	139_N	0.538	0.90
213_E	235_K	0.537	0.90
167_E	249_K	0.536	0.90
65_H	69_K	0.535	0.90
44_D	47_K	0.535	0.90
160_Q	170_K	0.534	0.90
114_Q	122_F	0.529	0.90
102_K	106_A	0.529	0.90
203_H	246_F	0.527	0.89
75_L	78_L	0.527	0.89
150_L	260_V	0.526	0.89
178_I	244_Y	0.523	0.89
113_F	118_A	0.523	0.89
200_K	249_K	0.523	0.89
166_G	239_H	0.523	0.89
140_K	143_Q	0.517	0.89
41_M	44_D	0.513	0.88
159_Q	240_N	0.513	0.88
126_F	132_F	0.513	0.88
213_E	241_K	0.512	0.88
166_G	241_K	0.507	0.88
159_Q	239_H	0.506	0.87
258_I	261_I	0.506	0.87
255_I	259_Q	0.505	0.87
143_Q	260_V	0.502	0.87
31_S	34_Q	0.502	0.87
195_T	200_K	0.501	0.87
49_G	56_D	0.500	0.87

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
4bh5A	4	0.4621	100	0.403	Contact Map
2hsiA	1	0.7159	100	0.414	Contact Map
3tufB	1	0.4508	100	0.419	Contact Map
4rnzA	1	0.9432	100	0.434	Contact Map
2gu1A	1	0.9394	100	0.447	Contact Map
3sluA	1	0.9735	100	0.454	Contact Map
1qwyA	1	0.5682	100	0.458	Contact Map
3it5A	1	0.4394	100	0.473	Contact Map
3nyyA	2	0.7803	100	0.474	Contact Map
4qp5A	1	0.447	100	0.483	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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