CSDA - ECOLI - GREMLIN Contacts

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CSDA - Cysteine desulfurase CsdA

UniProt:	Q46925	Sequences: MNVFNPAQFRAQFPALQDAGVYLDSAATALKPEAVVEATQQFYSLSAGNVHRSQFAEAQRLTARYEAAREKVAQLLNAPDDKTIVWTRGTTESINMVAQCYARPRLQPGDEIIVSVAEHHANLVPWLMVAQQTGAKVVKLPLNAQRLPDVDLLPELITPRSRILALGQMSNVTGGCPDLARAITFAHSAGMVVMVDGAQGAVHFPADVQQLDIDFYAFSGHKLYGPTGIGVLYGKSELLEAMSPWLGGGKMVHEVSFDGFTTQSAPWKLEAGTPNVAGVIGLSAALEWLADYDINQAESWSRSLATLAEDALAKRPGFRSFRCQDSSLLAFDFAGVHHSDMVTLLAEYGIALRAGQHCAQPLLAELGVTGTLRASFAPYNTKSDVDALVNAVDRALELLVD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13082
Length:	401 (323)
Sequences:	41146 (28309)
Seq/√Len:	1575.2

ECOLI - CSDA SUFS ISCS SERC DCEB DCEA LTAE
BACSU - SUFS ISCS2 ISCS YCBU ISCS1 PUCG SERC
HALSA - CSD Q9HR11 Q9HMR6 MFNA Q9HHV3
SULSO - Q97WK1 Q97VM5 Q97ZK0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
111_E	138_V	3.668	1.00
307_L	386_D	3.495	1.00
311_A	389_V	3.437	1.00
183_I	193_V	3.372	1.00
111_E	158_T	3.268	1.00
307_L	382_K	3.142	1.00
178_D	181_R	3.105	1.00
154_P	188_S	2.925	1.00
111_E	136_K	2.910	1.00
168_Q	200_G	2.676	1.00
348_Y	394_R	2.624	1.00
207_D	210_Q	2.570	1.00
152_L	155_E	2.497	1.00
154_P	185_F	2.476	1.00
116_V	141_P	2.466	1.00
315_R	393_D	2.457	1.00
111_E	161_S	2.425	1.00
197_G	216_Y	2.376	1.00
284_A	287_E	2.350	1.00
186_A	191_M	2.349	1.00
71_K	287_E	2.303	1.00
183_I	187_H	2.301	1.00
307_L	311_A	2.189	1.00
164_L	186_A	2.172	1.00
275_N	278_G	2.151	1.00
218_F	231_V	2.148	1.00
180_A	184_T	2.138	1.00
311_A	314_K	2.130	1.00
311_A	386_D	2.115	1.00
184_T	188_S	2.106	1.00
152_L	156_L	2.075	1.00
348_Y	391_A	2.048	1.00
319_R	332_D	1.985	1.00
187_H	214_D	1.948	1.00
94_I	121_A	1.946	1.00
387_A	391_A	1.908	1.00
149_D	152_L	1.898	1.00
374_A	388_L	1.896	1.00
306_T	310_D	1.894	1.00
111_E	160_R	1.886	1.00
110_D	162_R	1.872	1.00
319_R	334_A	1.859	1.00
303_S	382_K	1.813	1.00
186_A	193_V	1.811	1.00
180_A	210_Q	1.797	1.00
163_I	194_M	1.794	1.00
77_N	207_D	1.784	1.00
154_P	189_A	1.778	1.00
138_V	156_L	1.766	1.00
140_L	156_L	1.761	1.00
141_P	152_L	1.747	1.00
300_W	304_L	1.732	1.00
309_E	329_L	1.724	1.00
299_S	303_S	1.711	1.00
311_A	393_D	1.678	1.00
150_V	185_F	1.663	1.00
181_R	184_T	1.652	1.00
150_V	181_R	1.646	1.00
88_R	92_E	1.636	1.00
344_L	395_A	1.635	1.00
343_T	347_E	1.600	1.00
166_L	193_V	1.567	1.00
308_A	376_F	1.558	1.00
70_E	74_Q	1.552	1.00
72_V	231_V	1.545	1.00
157_I	185_F	1.537	1.00
185_F	189_A	1.531	1.00
74_Q	290_A	1.527	1.00
321_F	332_D	1.524	1.00
87_T	93_S	1.503	1.00
151_D	154_P	1.495	1.00
332_D	370_G	1.494	1.00
83_T	236_S	1.489	1.00
97_V	215_F	1.468	1.00
344_L	347_E	1.462	1.00
300_W	303_S	1.461	1.00
195_V	213_I	1.452	1.00
143_N	147_L	1.448	1.00
330_A	371_T	1.435	1.00
166_L	182_A	1.430	1.00
295_N	299_S	1.428	1.00
337_H	340_D	1.422	1.00
110_D	160_R	1.400	1.00
107_Q	110_D	1.387	1.00
151_D	155_E	1.383	1.00
302_R	306_T	1.375	1.00
382_K	386_D	1.371	1.00
187_H	212_D	1.356	1.00
213_I	216_Y	1.356	1.00
158_T	161_S	1.346	1.00
381_T	384_D	1.346	1.00
314_K	393_D	1.340	1.00
154_P	181_R	1.329	1.00
67_A	71_K	1.328	1.00
113_I	161_S	1.328	1.00
113_I	156_L	1.312	1.00
114_V	126_W	1.309	1.00
305_A	309_E	1.299	1.00
311_A	315_R	1.284	1.00
207_D	211_L	1.281	1.00
307_L	385_V	1.275	1.00
71_K	283_S	1.268	1.00
164_L	191_M	1.254	1.00
153_L	182_A	1.254	1.00
206_A	210_Q	1.235	1.00
138_V	158_T	1.209	1.00
183_I	212_D	1.206	1.00
71_K	290_A	1.202	1.00
94_I	194_M	1.200	1.00
391_A	394_R	1.200	1.00
90_T	198_A	1.197	1.00
220_G	282_L	1.191	1.00
101_Y	192_V	1.179	1.00
136_K	158_T	1.178	1.00
310_D	313_A	1.177	1.00
98_A	126_W	1.177	1.00
70_E	73_A	1.175	1.00
116_V	139_K	1.175	1.00
106_L	135_A	1.171	1.00
154_P	158_T	1.170	1.00
208_V	211_L	1.165	1.00
327_S	330_A	1.158	1.00
143_N	149_D	1.155	1.00
309_E	313_A	1.155	1.00
298_E	302_R	1.154	1.00
226_P	281_G	1.144	1.00
344_L	348_Y	1.137	1.00
293_D	296_Q	1.136	1.00
386_D	390_N	1.132	1.00
308_A	385_V	1.127	1.00
389_V	393_D	1.125	1.00
205_P	209_Q	1.123	1.00
340_D	344_L	1.122	1.00
310_D	314_K	1.122	1.00
79_P	236_S	1.120	1.00
245_W	249_G	1.119	1.00
173_T	366_L	1.116	1.00
345_L	352_L	1.108	1.00
387_A	390_N	1.100	1.00
247_G	250_K	1.097	1.00
47_A	51_H	1.094	1.00
246_L	249_G	1.093	1.00
179_L	195_V	1.091	1.00
296_Q	299_S	1.087	1.00
71_K	74_Q	1.081	1.00
205_P	208_V	1.078	1.00
341_M	395_A	1.074	1.00
63_A	67_A	1.073	1.00
390_N	394_R	1.072	1.00
187_H	193_V	1.068	1.00
383_S	386_D	1.067	1.00
106_L	110_D	1.060	1.00
168_Q	179_L	1.054	1.00
185_F	188_S	1.040	1.00
293_D	297_A	1.040	1.00
93_S	217_A	1.038	1.00
311_A	390_N	1.036	1.00
66_E	70_E	1.030	1.00
194_M	217_A	1.029	1.00
150_V	154_P	1.029	1.00
64_R	280_I	1.016	1.00
248_G	251_M	1.013	1.00
77_N	209_Q	1.006	1.00
114_V	139_K	1.000	1.00
280_I	283_S	0.997	1.00
223_L	282_L	0.996	1.00
215_F	234_G	0.995	1.00
339_S	343_T	0.989	1.00
79_P	235_K	0.983	1.00
106_L	109_G	0.982	1.00
151_D	181_R	0.980	1.00
248_G	252_V	0.979	1.00
350_I	391_A	0.977	1.00
99_Q	247_G	0.977	1.00
87_T	96_M	0.963	1.00
169_M	200_G	0.960	1.00
124_V	127_L	0.960	1.00
158_T	189_A	0.958	1.00
123_L	139_K	0.954	1.00
224_Y	377_A	0.953	1.00
283_S	287_E	0.946	1.00
249_G	252_V	0.946	1.00
304_L	385_V	0.944	1.00
94_I	217_A	0.944	1.00
68_A	283_S	0.943	1.00
153_L	164_L	0.942	1.00
296_Q	300_W	0.940	1.00
168_Q	216_Y	0.939	1.00
157_I	189_A	0.937	1.00
246_L	250_K	0.934	1.00
243_S	247_G	0.933	1.00
145_Q	323_C	0.932	1.00
79_P	209_Q	0.932	1.00
282_L	286_L	0.931	1.00
157_I	161_S	0.924	1.00
287_E	291_D	0.913	1.00
245_W	252_V	0.913	1.00
246_L	251_M	0.904	1.00
307_L	310_D	0.903	1.00
166_L	179_L	0.902	1.00
352_L	372_L	0.902	1.00
95_N	99_Q	0.898	1.00
140_L	152_L	0.898	1.00
317_G	334_A	0.897	1.00
350_I	388_L	0.896	1.00
245_W	251_M	0.890	1.00
47_A	50_V	0.888	1.00
109_G	162_R	0.887	1.00
264_S	267_W	0.884	1.00
263_Q	267_W	0.880	1.00
331_F	374_A	0.879	1.00
342_V	352_L	0.878	1.00
308_A	374_A	0.878	1.00
247_G	251_M	0.877	1.00
214_D	235_K	0.872	1.00
385_V	389_V	0.871	1.00
350_I	387_A	0.870	1.00
177_P	182_A	0.865	1.00
284_A	288_W	0.865	1.00
341_M	392_V	0.863	1.00
112_I	126_W	0.862	1.00
128_M	247_G	0.862	1.00
271_A	274_P	0.862	1.00
165_A	194_M	0.861	1.00
308_A	388_L	0.861	1.00
239_L	242_M	0.860	1.00
303_S	307_L	0.857	1.00
184_T	212_D	0.853	1.00
113_I	140_L	0.850	1.00
126_W	137_V	0.849	1.00
205_P	211_L	0.849	1.00
186_A	189_A	0.847	1.00
247_G	252_V	0.845	1.00
289_L	292_Y	0.839	1.00
201_A	218_F	0.836	1.00
48_G	51_H	0.835	1.00
167_G	171_N	0.834	1.00
343_T	346_A	0.831	1.00
342_V	354_A	0.828	1.00
312_L	392_V	0.824	1.00
183_I	211_L	0.822	1.00
73_A	81_D	0.819	1.00
157_I	191_M	0.817	1.00
164_L	182_A	0.813	1.00
105_R	108_P	0.806	1.00
194_M	215_F	0.806	1.00
166_L	177_P	0.802	1.00
246_L	252_V	0.799	1.00
383_S	387_A	0.795	1.00
113_I	138_V	0.794	1.00
208_V	233_Y	0.790	1.00
340_D	343_T	0.790	1.00
304_L	382_K	0.789	1.00
244_P	252_V	0.788	1.00
266_P	269_L	0.785	1.00
84_I	233_Y	0.784	1.00
300_W	382_K	0.781	1.00
304_L	376_F	0.781	1.00
386_D	389_V	0.779	1.00
235_K	238_L	0.777	1.00
65_Y	279_V	0.777	1.00
79_P	83_T	0.773	1.00
192_V	215_F	0.772	1.00
240_E	243_S	0.772	1.00
67_A	283_S	0.771	1.00
297_A	300_W	0.767	1.00
73_A	78_A	0.763	1.00
315_R	389_V	0.762	1.00
76_L	233_Y	0.758	1.00
214_D	219_S	0.756	1.00
265_A	268_K	0.754	1.00
244_P	250_K	0.750	1.00
380_N	385_V	0.749	1.00
129_V	135_A	0.745	1.00
380_N	384_D	0.744	1.00
75_L	201_A	0.743	1.00
184_T	187_H	0.743	1.00
215_F	238_L	0.743	1.00
214_D	217_A	0.742	1.00
117_A	177_P	0.740	1.00
309_E	320_S	0.738	1.00
150_V	153_L	0.738	1.00
180_A	211_L	0.736	1.00
245_W	248_G	0.734	1.00
186_A	190_G	0.733	1.00
114_V	118_E	0.732	1.00
305_A	329_L	0.728	1.00
268_K	274_P	0.728	1.00
376_F	385_V	0.727	1.00
281_G	285_A	0.724	1.00
71_K	288_W	0.718	1.00
220_G	225_G	0.718	1.00
153_L	185_F	0.718	1.00
176_C	204_F	0.717	1.00
122_N	165_A	0.715	1.00
312_L	331_F	0.713	1.00
99_Q	128_M	0.712	1.00
200_G	216_Y	0.711	1.00
76_L	218_F	0.711	1.00
182_A	193_V	0.710	1.00
244_P	248_G	0.708	1.00
157_I	164_L	0.707	1.00
287_E	290_A	0.707	1.00
68_A	71_K	0.704	1.00
217_A	220_G	0.704	1.00
78_A	233_Y	0.703	1.00
75_L	295_N	0.701	1.00
81_D	236_S	0.694	1.00
168_Q	211_L	0.693	1.00
342_V	346_A	0.691	1.00
349_G	353_R	0.688	1.00
79_P	237_E	0.686	1.00
67_A	287_E	0.676	1.00
297_A	378_P	0.675	1.00
265_A	269_L	0.675	1.00
308_A	329_L	0.674	1.00
264_S	268_K	0.674	1.00
338_H	354_A	0.673	1.00
245_W	250_K	0.672	1.00
101_Y	105_R	0.671	1.00
78_A	83_T	0.671	1.00
206_A	209_Q	0.670	1.00
98_A	163_I	0.670	1.00
320_S	332_D	0.669	1.00
282_L	285_A	0.669	1.00
304_L	308_A	0.668	1.00
273_T	276_V	0.667	1.00
244_P	247_G	0.666	1.00
391_A	395_A	0.664	1.00
168_Q	195_V	0.662	1.00
329_L	332_D	0.662	1.00
352_L	374_A	0.661	1.00
192_V	214_D	0.657	1.00
64_R	67_A	0.655	1.00
323_C	326_S	0.655	1.00
205_P	295_N	0.655	1.00
192_V	238_L	0.655	1.00
206_A	211_L	0.653	1.00
216_Y	219_S	0.650	1.00
114_V	137_V	0.650	1.00
138_V	161_S	0.649	1.00
181_R	185_F	0.648	1.00
313_A	323_C	0.647	1.00
80_D	237_E	0.645	1.00
112_I	163_I	0.645	1.00
201_A	223_L	0.644	1.00
301_S	327_S	0.643	1.00
388_L	392_V	0.642	1.00
244_P	249_G	0.638	1.00
220_G	229_I	0.637	1.00
123_L	127_L	0.636	1.00
283_S	286_L	0.635	1.00
214_D	220_G	0.633	1.00
136_K	160_R	0.633	1.00
197_G	200_G	0.633	1.00
297_A	301_S	0.632	1.00
75_L	286_L	0.629	1.00
350_I	353_R	0.629	1.00
285_A	290_A	0.629	1.00
390_N	393_D	0.627	1.00
97_V	101_Y	0.626	1.00
321_F	371_T	0.623	1.00
90_T	94_I	0.622	1.00
55_F	58_A	0.622	1.00
120_H	124_V	0.619	1.00
388_L	391_A	0.619	1.00
321_F	330_A	0.618	1.00
66_E	69_R	0.617	1.00
263_Q	268_K	0.616	1.00
141_P	156_L	0.614	1.00
212_D	235_K	0.614	1.00
67_A	70_E	0.611	1.00
56_A	60_R	0.610	1.00
197_G	201_A	0.609	1.00
263_Q	266_P	0.608	1.00
307_L	389_V	0.605	1.00
205_P	210_Q	0.604	1.00
327_S	332_D	0.595	1.00
303_S	306_T	0.595	1.00
43_Y	277_A	0.593	1.00
330_A	333_F	0.592	1.00
288_W	291_D	0.591	1.00
308_A	312_L	0.587	1.00
286_L	290_A	0.587	1.00
240_E	244_P	0.587	1.00
54_Q	58_A	0.582	1.00
125_P	129_V	0.579	1.00
341_M	372_L	0.575	1.00
101_Y	215_F	0.575	1.00
236_S	240_E	0.575	1.00
266_P	273_T	0.574	1.00
308_A	389_V	0.574	1.00
234_G	239_L	0.574	1.00
97_V	194_M	0.573	1.00
308_A	311_A	0.571	1.00
319_R	322_R	0.571	1.00
68_A	86_W	0.571	1.00
183_I	186_A	0.571	1.00
159_P	189_A	0.570	1.00
341_M	344_L	0.568	1.00
299_S	302_R	0.567	1.00
94_I	165_A	0.565	1.00
288_W	292_Y	0.563	1.00
71_K	292_Y	0.563	1.00
59_Q	62_T	0.561	1.00
116_V	142_L	0.560	1.00
336_V	340_D	0.559	1.00
153_L	157_I	0.555	1.00
71_K	75_L	0.554	1.00
180_A	206_A	0.554	1.00
126_W	165_A	0.553	1.00
285_A	289_L	0.553	1.00
224_Y	378_P	0.552	1.00
72_V	86_W	0.552	1.00
327_S	331_F	0.550	1.00
155_E	159_P	0.549	1.00
185_F	191_M	0.549	1.00
179_L	193_V	0.549	1.00
135_A	162_R	0.544	1.00
115_S	166_L	0.541	1.00
122_N	126_W	0.539	1.00
60_R	63_A	0.538	1.00
270_E	273_T	0.538	1.00
278_G	281_G	0.538	1.00
318_F	323_C	0.537	1.00
127_L	139_K	0.536	1.00
329_L	333_F	0.536	1.00
95_N	128_M	0.536	1.00
85_V	96_M	0.536	1.00
117_A	175_G	0.535	1.00
163_I	192_V	0.534	1.00
111_E	159_P	0.534	1.00
76_L	208_V	0.533	1.00
208_V	212_D	0.532	1.00
70_E	81_D	0.531	1.00
274_P	277_A	0.531	1.00
338_H	342_V	0.530	1.00
91_T	95_N	0.528	1.00
56_A	346_A	0.528	1.00
179_L	183_I	0.528	1.00
236_S	239_L	0.527	1.00
114_V	123_L	0.527	1.00
65_Y	276_V	0.527	1.00
72_V	286_L	0.525	1.00
222_K	373_R	0.525	1.00
183_I	195_V	0.524	1.00
83_T	235_K	0.524	1.00
244_P	251_M	0.524	1.00
156_L	159_P	0.523	1.00
118_E	123_L	0.523	1.00
70_E	80_D	0.523	1.00
229_I	278_G	0.522	1.00
217_A	221_H	0.521	1.00
318_F	333_F	0.520	1.00
205_P	298_E	0.520	1.00
62_T	66_E	0.519	1.00
377_A	380_N	0.519	1.00
220_G	223_L	0.519	1.00
229_I	279_V	0.519	1.00
143_N	152_L	0.518	1.00
51_H	274_P	0.518	1.00
306_T	309_E	0.518	1.00
198_A	222_K	0.518	1.00
315_R	318_F	0.517	1.00
336_V	341_M	0.516	1.00
187_H	190_G	0.516	1.00
327_S	334_A	0.516	1.00
168_Q	206_A	0.515	1.00
223_L	286_L	0.514	1.00
348_Y	395_A	0.512	1.00
295_N	298_E	0.512	1.00
312_L	318_F	0.511	1.00
154_P	184_T	0.510	1.00
69_R	86_W	0.510	1.00
90_T	217_A	0.507	1.00
349_G	352_L	0.507	1.00
320_S	323_C	0.507	1.00
140_L	153_L	0.505	1.00
97_V	232_L	0.503	1.00
315_R	390_N	0.502	1.00
150_V	178_D	0.501	1.00
216_Y	220_G	0.501	1.00
376_F	380_N	0.500	1.00
98_A	165_A	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
1kmjA	2	0.99	100	0.322	Contact Map
4lw2A	2	0.995	100	0.323	Contact Map
4q75A	2	0.995	100	0.333	Contact Map
4w91A	2	0.99	100	0.334	Contact Map
3e9kA	2	0.9501	100	0.336	Contact Map
1t3iA	2	0.985	100	0.336	Contact Map
3caiA	2	0.9352	100	0.366	Contact Map
1eluA	2	0.9202	100	0.385	Contact Map
3a9zA	2	0.9027	100	0.385	Contact Map
4isyA	2	0.8903	100	0.395	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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