GERKB - BACSU - GREMLIN Contacts

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GERKB - Spore germination protein KB

UniProt:	P49940	Sequences: MEKARISIRQLFVMIIIFELGSSLLITPGSMAGRDAWIAVLLGCAIGLFLFYLYQGIYQCYPNSSPKEYMDDMLGTKLSWLFSFLYILYFAYIAARVLRDFGEMLLTFAYHDTPIIIVNALLMVVSIYAVRKGIEVLARAAELLFGAMYLLGAIGLVLIIVSGTIDPHNLKPVLANGISPVLHSVFTQTMYVPFGEVVLFVMIFPNLNDRKDVKKMGMIAMAISGLIVALTVAINISVLDVDLTLRSQFPLLSTIQTIKVEEFLDRLDVFFMLALIIGGFFKVSLYLYATVVGTSTLFKEKNPSQLAYPMGLGILILSITIATNFSEHLNEGLNVVPLYIHLPFQLLFPLFLFIVAVWKKKRREKSKGEEAKK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	373 (346)
Sequences:	23013 (14765)
Seq/√Len:	793.8

ECOLI - POTE YIFK AROP PHEP GABP LYSP ANSP MMUP PROY YCAM YBAT PLAP YGJI FRLA YJEM CYCA ADIC YJEH PUUP GADC ARCD CADB TNAB TYRP MTR
BACSU - GERKB YNDE GERBB YDGF GERAB YBGF YHDG ROCC YBEC HUTM YECA YBXG YTNA STET AAPA ASPP GABP YFNA YVBW ARCD ROCE YCGH YFKT YDAO
HALSA - Q9HHU7 Q9HQB3 Q9HSL5
SULSO - Q97XM0 Q7LXI7 Q97Y76 Q97U05 Q97ZB5 Q97X49 Q97WS3 Q97WD4 Q97YN3 Q97U33 Q97VR4 Q97VA8 Q97Z63 Q97VA6 Q97YX9 Q97U39

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
307_A	310_M	3.996	1.00
44_C	225_G	3.872	1.00
308_Y	311_G	3.686	1.00
307_A	311_G	3.266	1.00
211_K	215_K	3.155	1.00
207_L	212_D	2.919	1.00
7_S	208_N	2.835	1.00
304_S	307_A	2.797	1.00
83_S	297_L	2.646	1.00
12_F	219_I	2.567	1.00
304_S	308_Y	2.562	1.00
155_G	159_I	2.540	1.00
127_I	316_I	2.513	1.00
8_I	219_I	2.509	1.00
206_N	292_V	2.476	1.00
357_V	361_K	2.416	1.00
156_L	160_I	2.402	1.00
67_K	300_E	2.347	1.00
253_S	256_Q	2.300	1.00
128_Y	132_K	2.285	1.00
295_S	299_K	2.283	1.00
11_L	207_L	2.241	1.00
215_K	219_I	2.218	1.00
266_R	270_F	2.187	1.00
8_I	12_F	2.181	1.00
307_A	314_I	2.152	1.00
135_E	139_R	2.139	1.00
205_P	299_K	2.078	1.00
7_S	10_Q	2.065	1.00
253_S	257_T	2.035	1.00
71_D	76_T	2.035	1.00
305_Q	308_Y	2.025	1.00
8_I	212_D	1.995	1.00
70_M	82_F	1.988	1.00
156_L	159_I	1.986	1.00
306_L	311_G	1.979	1.00
71_D	79_S	1.971	1.00
146_G	150_L	1.960	1.00
45_A	49_F	1.934	1.00
10_Q	142_E	1.845	1.00
209_D	212_D	1.835	1.00
311_G	314_I	1.829	1.00
355_V	359_K	1.816	1.00
155_G	160_I	1.790	1.00
15_I	220_A	1.782	1.00
12_F	223_I	1.776	1.00
310_M	314_I	1.752	1.00
218_M	222_A	1.726	1.00
305_Q	309_P	1.715	1.00
161_V	165_I	1.712	1.00
166_D	170_L	1.689	1.00
165_I	168_H	1.686	1.00
6_I	10_Q	1.666	1.00
357_V	360_K	1.652	1.00
256_Q	268_D	1.650	1.00
261_E	266_R	1.647	1.00
105_L	118_V	1.641	1.00
166_D	169_N	1.632	1.00
51_F	217_G	1.614	1.00
151_L	274_A	1.603	1.00
203_I	288_Y	1.600	1.00
101_F	122_L	1.591	1.00
165_I	237_S	1.586	1.00
308_Y	312_L	1.581	1.00
61_Y	72_D	1.571	1.00
163_G	166_D	1.560	1.00
308_Y	314_I	1.557	1.00
98_L	283_V	1.541	1.00
256_Q	261_E	1.535	1.00
354_I	358_W	1.511	1.00
51_F	221_M	1.508	1.00
306_L	310_M	1.501	1.00
98_L	123_M	1.500	1.00
10_Q	138_A	1.494	1.00
39_A	184_S	1.488	1.00
75_G	78_L	1.488	1.00
240_D	243_L	1.470	1.00
212_D	215_K	1.454	1.00
222_A	226_L	1.451	1.00
130_V	284_S	1.450	1.00
126_S	283_V	1.424	1.00
243_L	257_T	1.421	1.00
269_V	273_L	1.408	1.00
52_Y	218_M	1.408	1.00
333_L	337_P	1.400	1.00
131_R	309_P	1.399	1.00
177_G	180_P	1.394	1.00
247_S	253_S	1.378	1.00
311_G	315_L	1.373	1.00
37_W	233_A	1.360	1.00
168_H	171_K	1.355	1.00
64_S	205_P	1.354	1.00
210_R	214_K	1.354	1.00
56_G	59_Q	1.351	1.00
120_A	322_A	1.346	1.00
167_P	171_K	1.332	1.00
168_H	172_P	1.328	1.00
120_A	320_T	1.327	1.00
68_E	72_D	1.322	1.00
8_I	215_K	1.316	1.00
312_L	316_I	1.315	1.00
16_I	223_I	1.314	1.00
35_D	174_L	1.311	1.00
43_G	188_Q	1.304	1.00
6_I	11_L	1.295	1.00
209_D	215_K	1.286	1.00
161_V	164_T	1.286	1.00
167_P	170_L	1.284	1.00
120_A	124_V	1.275	1.00
259_K	267_L	1.274	1.00
163_G	167_P	1.274	1.00
208_N	212_D	1.245	1.00
41_L	229_A	1.243	1.00
161_V	167_P	1.226	1.00
162_S	166_D	1.216	1.00
113_T	116_I	1.213	1.00
309_P	312_L	1.205	1.00
343_P	346_L	1.205	1.00
74_L	78_L	1.204	1.00
346_L	350_L	1.199	1.00
101_F	276_I	1.193	1.00
87_I	294_T	1.183	1.00
11_L	216_M	1.181	1.00
15_I	200_F	1.181	1.00
309_P	313_G	1.179	1.00
63_N	68_E	1.173	1.00
127_I	131_R	1.173	1.00
358_W	361_K	1.171	1.00
348_F	354_I	1.168	1.00
58_Y	69_Y	1.168	1.00
19_E	224_S	1.166	1.00
307_A	318_S	1.163	1.00
140_A	144_L	1.159	1.00
80_W	84_F	1.157	1.00
165_I	170_L	1.156	1.00
9_R	13_V	1.154	1.00
155_G	158_L	1.153	1.00
124_V	316_I	1.150	1.00
305_Q	310_M	1.147	1.00
307_A	312_L	1.140	1.00
144_L	281_F	1.130	1.00
345_Q	348_F	1.125	1.00
323_T	326_S	1.115	1.00
125_V	280_F	1.115	1.00
233_A	237_S	1.109	1.00
348_F	351_F	1.108	1.00
5_R	208_N	1.105	1.00
139_R	143_L	1.104	1.00
332_G	336_V	1.102	1.00
183_H	187_T	1.095	1.00
82_F	350_L	1.092	1.00
328_H	331_E	1.087	1.00
350_L	354_I	1.085	1.00
162_S	170_L	1.082	1.00
35_D	181_V	1.080	1.00
330_N	334_N	1.079	1.00
226_L	230_L	1.078	1.00
102_G	118_V	1.073	1.00
161_V	166_D	1.071	1.00
20_L	23_S	1.062	1.00
16_I	224_S	1.057	1.00
67_K	296_T	1.056	1.00
249_F	253_S	1.052	1.00
97_V	282_K	1.051	1.00
308_Y	316_I	1.048	1.00
322_A	326_S	1.046	1.00
164_T	167_P	1.046	1.00
165_I	169_N	1.044	1.00
329_L	333_L	1.044	1.00
353_F	357_V	1.041	1.00
345_Q	349_P	1.040	1.00
315_L	318_S	1.038	1.00
169_N	172_P	1.037	1.00
14_M	203_I	1.036	1.00
54_Y	66_P	1.035	1.00
129_A	140_A	1.035	1.00
77_K	81_L	1.033	1.00
154_I	157_V	1.032	1.00
313_G	317_L	1.030	1.00
198_V	202_M	1.023	1.00
314_I	318_S	1.017	1.00
164_T	172_P	1.013	1.00
26_I	100_D	1.013	1.00
204_F	213_V	1.011	1.00
340_I	348_F	1.011	1.00
304_S	311_G	1.010	1.00
294_T	303_P	1.008	1.00
162_S	165_I	1.006	1.00
96_R	192_V	1.003	1.00
351_F	354_I	1.001	1.00
164_T	170_L	1.001	1.00
167_P	172_P	0.997	1.00
63_N	72_D	0.997	1.00
121_L	125_V	0.995	1.00
308_Y	318_S	0.995	1.00
139_R	142_E	0.992	1.00
321_I	324_N	0.988	1.00
134_I	288_Y	0.984	1.00
141_A	284_S	0.983	1.00
354_I	357_V	0.980	1.00
70_M	78_L	0.979	1.00
117_I	121_L	0.979	1.00
114_P	117_I	0.970	1.00
132_K	305_Q	0.963	1.00
126_S	284_S	0.963	1.00
6_I	138_A	0.961	1.00
101_F	280_F	0.960	1.00
341_H	345_Q	0.950	1.00
343_P	347_L	0.949	1.00
5_R	135_E	0.948	1.00
112_D	115_I	0.948	1.00
166_D	171_K	0.945	1.00
118_V	121_L	0.938	1.00
341_H	346_L	0.937	1.00
149_Y	227_I	0.935	1.00
124_V	128_Y	0.935	1.00
128_Y	131_R	0.934	1.00
124_V	320_T	0.930	1.00
24_L	28_P	0.923	1.00
305_Q	311_G	0.921	1.00
8_I	216_M	0.914	1.00
13_V	142_E	0.908	1.00
48_L	52_Y	0.907	1.00
166_D	172_P	0.906	1.00
157_V	160_I	0.902	1.00
162_S	168_H	0.898	1.00
243_L	246_R	0.897	1.00
260_V	267_L	0.876	1.00
10_Q	139_R	0.876	1.00
113_T	117_I	0.876	1.00
247_S	250_P	0.875	1.00
35_D	173_V	0.875	1.00
74_L	353_F	0.868	1.00
71_D	300_E	0.866	1.00
315_L	319_I	0.864	1.00
178_I	182_L	0.863	1.00
351_F	355_V	0.862	1.00
349_P	352_L	0.861	1.00
164_T	168_H	0.861	1.00
105_L	276_I	0.860	1.00
102_G	119_N	0.859	1.00
112_D	116_I	0.855	1.00
127_I	312_L	0.855	1.00
44_C	194_F	0.853	1.00
356_A	361_K	0.853	1.00
37_W	236_I	0.851	1.00
163_G	170_L	0.850	1.00
306_L	314_I	0.849	1.00
9_R	139_R	0.844	1.00
126_S	287_L	0.844	1.00
349_P	353_F	0.841	1.00
23_S	29_G	0.841	1.00
346_L	354_I	0.836	1.00
49_F	53_L	0.835	1.00
48_L	218_M	0.830	1.00
132_K	136_V	0.828	1.00
163_G	168_H	0.823	1.00
304_S	310_M	0.822	1.00
238_V	254_T	0.821	1.00
47_G	197_V	0.821	1.00
154_I	159_I	0.820	1.00
354_I	361_K	0.819	1.00
225_G	229_A	0.817	1.00
240_D	257_T	0.814	1.00
304_S	309_P	0.811	1.00
306_L	309_P	0.810	1.00
53_L	352_L	0.806	1.00
292_V	295_S	0.805	1.00
163_G	171_K	0.802	1.00
182_L	186_F	0.801	1.00
163_G	172_P	0.798	1.00
12_F	216_M	0.793	1.00
56_G	60_C	0.789	1.00
181_V	184_S	0.785	1.00
199_L	289_A	0.785	1.00
205_P	295_S	0.784	1.00
130_V	288_Y	0.783	1.00
321_I	326_S	0.781	1.00
250_P	254_T	0.780	1.00
219_I	223_I	0.780	1.00
17_I	145_F	0.776	1.00
98_L	102_G	0.776	1.00
119_N	323_T	0.772	1.00
9_R	142_E	0.768	1.00
148_M	278_G	0.768	1.00
28_P	232_V	0.766	1.00
15_I	19_E	0.765	1.00
104_M	275_L	0.764	1.00
347_L	351_F	0.760	1.00
165_I	172_P	0.757	1.00
312_L	315_L	0.756	1.00
21_G	29_G	0.756	1.00
308_Y	315_L	0.755	1.00
331_E	334_N	0.753	1.00
133_G	136_V	0.751	1.00
131_R	313_G	0.750	1.00
77_K	80_W	0.750	1.00
209_D	214_K	0.750	1.00
255_I	260_V	0.749	1.00
101_F	279_G	0.746	1.00
307_A	316_I	0.746	1.00
57_I	69_Y	0.746	1.00
60_C	361_K	0.745	1.00
287_L	291_V	0.742	1.00
162_S	169_N	0.736	1.00
329_L	332_G	0.736	1.00
21_G	24_L	0.734	1.00
163_G	169_N	0.730	1.00
321_I	325_F	0.728	1.00
138_A	142_E	0.727	1.00
334_N	337_P	0.726	1.00
306_L	319_I	0.725	1.00
84_F	303_P	0.725	1.00
174_L	178_I	0.723	1.00
266_R	269_V	0.721	1.00
30_S	33_G	0.721	1.00
308_Y	319_I	0.720	1.00
230_L	234_I	0.717	1.00
348_F	352_L	0.713	1.00
223_I	227_I	0.712	1.00
21_G	26_I	0.712	1.00
195_G	198_V	0.710	1.00
308_Y	325_F	0.710	1.00
136_V	139_R	0.705	1.00
57_I	73_M	0.703	1.00
21_G	25_L	0.700	1.00
20_L	25_L	0.699	1.00
116_I	120_A	0.698	1.00
111_H	114_P	0.698	1.00
110_Y	113_T	0.698	1.00
325_F	328_H	0.698	1.00
126_S	280_F	0.698	1.00
12_F	15_I	0.697	1.00
122_L	283_V	0.696	1.00
331_E	335_V	0.695	1.00
21_G	28_P	0.694	1.00
94_A	319_I	0.694	1.00
207_L	213_V	0.692	1.00
123_M	319_I	0.683	1.00
162_S	167_P	0.682	1.00
37_W	41_L	0.682	1.00
18_F	286_Y	0.682	1.00
310_M	313_G	0.680	1.00
38_I	41_L	0.679	1.00
161_V	168_H	0.679	1.00
51_F	197_V	0.678	1.00
234_I	237_S	0.677	1.00
55_Q	59_Q	0.676	1.00
173_V	176_N	0.676	1.00
136_V	140_A	0.676	1.00
304_S	312_L	0.673	1.00
86_Y	90_F	0.672	1.00
64_S	295_S	0.671	1.00
161_V	170_L	0.671	1.00
178_I	181_V	0.670	1.00
172_P	175_A	0.667	1.00
170_L	237_S	0.667	1.00
341_H	348_F	0.665	1.00
18_F	285_L	0.664	1.00
38_I	181_V	0.663	1.00
322_A	325_F	0.663	1.00
56_G	357_V	0.662	1.00
67_K	83_S	0.661	1.00
74_L	355_V	0.658	1.00
5_R	9_R	0.658	1.00
255_I	259_K	0.658	1.00
105_L	122_L	0.657	1.00
320_T	324_N	0.656	1.00
164_T	171_K	0.656	1.00
154_I	158_L	0.654	1.00
164_T	169_N	0.654	1.00
345_Q	350_L	0.654	1.00
24_L	27_T	0.653	1.00
355_V	358_W	0.653	1.00
341_H	344_F	0.651	1.00
342_L	345_Q	0.650	1.00
142_E	146_G	0.649	1.00
346_L	352_L	0.649	1.00
38_I	42_L	0.646	1.00
290_T	294_T	0.646	1.00
19_E	220_A	0.645	1.00
21_G	228_V	0.644	1.00
314_I	319_I	0.643	1.00
340_I	354_I	0.642	1.00
171_K	174_L	0.641	1.00
40_V	193_P	0.638	1.00
67_K	71_D	0.636	1.00
145_F	148_M	0.634	1.00
328_H	332_G	0.633	1.00
319_I	322_A	0.631	1.00
349_P	356_A	0.629	1.00
90_F	286_Y	0.628	1.00
74_L	357_V	0.627	1.00
73_M	352_L	0.625	1.00
16_I	145_F	0.624	1.00
174_L	181_V	0.623	1.00
340_I	345_Q	0.622	1.00
255_I	258_I	0.622	1.00
343_P	350_L	0.619	1.00
350_L	353_F	0.619	1.00
352_L	358_W	0.619	1.00
32_A	39_A	0.619	1.00
345_Q	352_L	0.617	1.00
40_V	232_V	0.617	1.00
160_I	234_I	0.617	1.00
316_I	320_T	0.616	1.00
5_R	134_I	0.616	1.00
249_F	252_L	0.615	1.00
201_V	217_G	0.609	1.00
51_F	55_Q	0.607	1.00
298_F	303_P	0.605	1.00
17_I	21_G	0.603	1.00
31_M	183_H	0.603	1.00
58_Y	201_V	0.603	1.00
20_L	227_I	0.602	1.00
72_D	360_K	0.601	1.00
352_L	356_A	0.601	1.00
127_I	287_L	0.601	1.00
101_F	105_L	0.598	1.00
104_M	252_L	0.596	1.00
340_I	343_P	0.596	1.00
34_R	37_W	0.593	1.00
78_L	81_L	0.592	1.00
58_Y	213_V	0.592	1.00
157_V	161_V	0.591	1.00
97_V	100_D	0.590	1.00
53_L	350_L	0.590	1.00
25_L	28_P	0.588	1.00
161_V	169_N	0.588	1.00
202_M	289_A	0.586	1.00
31_M	184_S	0.586	1.00
75_G	79_S	0.586	1.00
283_V	286_Y	0.584	1.00
43_G	194_F	0.580	1.00
93_I	96_R	0.580	1.00
37_W	229_A	0.579	1.00
34_R	241_V	0.579	1.00
131_R	307_A	0.579	1.00
137_L	288_Y	0.578	1.00
105_L	109_A	0.577	1.00
124_V	127_I	0.577	1.00
48_L	221_M	0.576	1.00
102_G	105_L	0.575	1.00
161_V	172_P	0.575	1.00
42_L	185_V	0.575	1.00
87_I	91_A	0.575	1.00
20_L	27_T	0.575	1.00
316_I	319_I	0.575	1.00
231_T	251_L	0.574	1.00
18_F	199_L	0.574	1.00
254_T	258_I	0.573	1.00
307_A	313_G	0.572	1.00
66_P	198_V	0.566	1.00
347_L	352_L	0.565	1.00
257_T	261_E	0.565	1.00
131_R	305_Q	0.563	1.00
20_L	24_L	0.560	1.00
214_K	217_G	0.560	1.00
184_S	187_T	0.553	1.00
305_Q	318_S	0.552	1.00
342_L	349_P	0.551	1.00
122_L	126_S	0.548	1.00
93_I	97_V	0.548	1.00
106_L	115_I	0.546	1.00
341_H	347_L	0.544	1.00
195_G	344_F	0.543	1.00
97_V	279_G	0.542	1.00
298_F	301_K	0.541	1.00
150_L	155_G	0.541	1.00
41_L	45_A	0.541	1.00
22_S	27_T	0.540	1.00
40_V	228_V	0.538	1.00
344_F	348_F	0.538	1.00
207_L	216_M	0.537	1.00
349_P	354_I	0.535	1.00
22_S	25_L	0.535	1.00
243_L	253_S	0.535	1.00
219_I	222_A	0.534	1.00
97_V	283_V	0.533	1.00
61_Y	73_M	0.533	1.00
39_A	188_Q	0.532	1.00
352_L	355_V	0.532	1.00
236_I	240_D	0.531	1.00
237_S	240_D	0.529	1.00
55_Q	217_G	0.527	1.00
336_V	340_I	0.527	1.00
23_S	27_T	0.525	1.00
134_I	203_I	0.524	1.00
23_S	28_P	0.523	1.00
237_S	241_V	0.521	1.00
66_P	202_M	0.521	1.00
32_A	35_D	0.521	1.00
270_F	274_A	0.520	1.00
185_V	189_T	0.519	1.00
181_V	185_V	0.518	1.00
223_I	226_L	0.517	1.00
100_D	104_M	0.516	1.00
269_V	272_M	0.516	1.00
332_G	337_P	0.515	1.00
231_T	235_N	0.513	1.00
290_T	315_L	0.512	1.00
81_L	85_L	0.512	1.00
39_A	181_V	0.511	1.00
110_Y	114_P	0.511	1.00
14_M	17_I	0.510	1.00
278_G	281_F	0.509	1.00
343_P	348_F	0.508	1.00
306_L	318_S	0.508	1.00
6_I	134_I	0.508	1.00
297_L	303_P	0.507	1.00
20_L	148_M	0.506	1.00
347_L	354_I	0.506	1.00
138_A	284_S	0.505	1.00
79_S	83_S	0.505	1.00
95_A	98_L	0.504	1.00
181_V	188_Q	0.503	1.00
261_E	269_V	0.503	1.00
211_K	214_K	0.501	1.00
127_I	315_L	0.500	1.00

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
3l1lA	2	0.9464	100	0.317	Contact Map
3giaA	1	0.9464	100	0.366	Contact Map
4djkA	2	0.9517	100	0.4	Contact Map
3dh4A	3	0.9383	98.7	0.838	Contact Map
2xq2A	2	0.933	98.5	0.85	Contact Map
2jlnA	1	0.9437	98.4	0.854	Contact Map
4wgvA	2	0.9276	98.3	0.857	Contact Map
4us3A	1	0.9651	97.7	0.876	Contact Map
2a65A	2	0.9705	97.6	0.88	Contact Map
4xp4A	1	0.9625	96.9	0.893	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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