HEMY - ECOLI - GREMLIN Contacts

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HEMY - Protein HemY

UniProt:	P0ACB7	Sequences: MLKVLLLFVLLIAGIVVGPMIAGHQGYVLIQTDNYNIETSVTGLAIILILAMVVLFAIEWLLRRIFRTGAHTRGWFVGRKRRRARKQTEQALLKLAEGDYQQVEKLMAKNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELAGNDTIPVEITRVRLQLARNENHAARHGVDKLLEVTPRHPEVLRLAEQAYIRTGAWSSLLDIIPSMAKAHVGDEEHRAMLEQQAWIGLMDQARADNGSEGLRNWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIIIDGLKRQYDDRLLLPIPRLKTNNPEQLEKVLRQQIKNVGDRPLLWSTLGQSLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLTLQNNPPQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10434
Length:	398 (305)
Sequences:	8617 (7428)
Seq/√Len:	425.3

ECOLI - HEMY LPSRP PGAA YPHG
BACSU - YVCD YPIA
SULSO - Q97ZS3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
376_K	379_E	4.211	1.00
202_A	205_S	4.110	1.00
133_D	136_R	3.928	1.00
278_D	281_T	3.879	1.00
343_E	346_E	3.860	1.00
244_G	247_G	3.726	1.00
309_N	312_Q	3.687	1.00
168_E	171_A	3.677	1.00
99_D	102_Q	3.517	1.00
270_A	286_I	2.863	1.00
335_G	351_F	2.751	1.00
331_W	350_A	2.577	1.00
364_Y	383_M	2.558	1.00
368_A	384_R	2.535	1.00
91_A	107_M	2.490	1.00
236_M	252_W	2.421	1.00
194_E	210_I	2.354	1.00
107_M	123_L	2.273	1.00
125_A	141_L	2.245	1.00
160_V	176_V	2.217	1.00
266_Q	285_I	2.099	1.00
121_Y	140_H	2.034	1.00
141_L	158_T	2.021	1.00
108_A	124_A	1.974	1.00
177_D	193_A	1.951	1.00
269_M	285_I	1.900	1.00
142_E	159_R	1.877	1.00
176_V	192_L	1.848	1.00
253_K	269_M	1.815	1.00
124_A	140_H	1.806	1.00
156_E	175_G	1.803	1.00
190_L	209_I	1.790	1.00
193_A	209_I	1.783	1.00
334_L	350_A	1.759	1.00
348_S	370_A	1.758	1.00
318_R	334_L	1.742	1.00
283_Q	287_I	1.738	1.00
317_L	333_T	1.724	1.00
348_S	352_R	1.687	1.00
128_A	136_R	1.664	1.00
348_S	367_L	1.663	1.00
252_W	268_A	1.652	1.00
351_F	366_W	1.639	1.00
303_P	317_L	1.635	1.00
159_R	175_G	1.634	1.00
314_E	337_S	1.608	1.00
124_A	128_A	1.604	1.00
163_Q	175_G	1.584	1.00
311_E	341_H	1.564	1.00
232_W	251_W	1.536	1.00
352_R	367_L	1.520	1.00
104_E	127_A	1.519	1.00
87_Q	106_L	1.515	1.00
371_L	379_E	1.514	1.00
367_L	383_M	1.511	1.00
386_D	389_M	1.489	1.00
273_L	281_T	1.487	1.00
143_R	146_E	1.473	1.00
314_E	318_R	1.469	1.00
254_N	257_R	1.467	1.00
269_M	273_L	1.439	1.00
372_D	384_R	1.425	1.00
314_E	334_L	1.423	1.00
353_A	356_K	1.417	1.00
94_K	99_D	1.407	1.00
211_P	235_L	1.407	1.00
299_L	316_V	1.405	1.00
193_A	197_Y	1.386	1.00
371_L	383_M	1.382	1.00
197_Y	205_S	1.379	1.00
90_Q	106_L	1.377	1.00
334_L	338_L	1.377	1.00
173_R	196_A	1.369	1.00
91_A	110_N	1.366	1.00
163_Q	171_A	1.366	1.00
163_Q	168_E	1.365	1.00
332_S	366_W	1.353	1.00
338_L	346_E	1.349	1.00
197_Y	209_I	1.347	1.00
94_K	106_L	1.337	1.00
138_N	159_R	1.334	1.00
235_L	251_W	1.334	1.00
159_R	163_Q	1.312	1.00
287_I	302_I	1.310	1.00
239_A	247_G	1.296	1.00
111_A	120_N	1.290	1.00
354_A	363_D	1.290	1.00
104_E	124_A	1.289	1.00
90_Q	94_K	1.289	1.00
173_R	177_D	1.281	1.00
371_L	376_K	1.277	1.00
249_R	253_K	1.274	1.00
249_R	273_L	1.266	1.00
236_M	255_Q	1.265	1.00
94_K	102_Q	1.261	1.00
339_M	351_F	1.261	1.00
321_I	330_L	1.254	1.00
128_A	140_H	1.249	1.00
84_A	110_N	1.248	1.00
101_Q	131_R	1.233	1.00
249_R	269_M	1.207	1.00
288_D	291_K	1.205	1.00
319_Q	322_K	1.198	1.00
138_N	142_E	1.184	1.00
345_Q	374_L	1.181	1.00
173_R	200_T	1.176	1.00
104_E	128_A	1.173	1.00
186_H	189_V	1.166	1.00
381_A	385_R	1.160	1.00
173_R	193_A	1.152	1.00
314_E	341_H	1.152	1.00
162_L	166_R	1.148	1.00
368_A	387_G	1.144	1.00
263_V	289_G	1.144	1.00
321_I	331_W	1.131	1.00
249_R	276_C	1.131	1.00
170_H	200_T	1.128	1.00
95_L	107_M	1.125	1.00
293_Q	296_D	1.121	1.00
104_E	131_R	1.112	1.00
336_Q	366_W	1.109	1.00
324_V	327_R	1.106	1.00
235_L	239_A	1.100	1.00
256_S	265_L	1.094	1.00
128_A	133_D	1.094	1.00
273_L	285_I	1.091	1.00
153_I	179_L	1.090	1.00
246_E	276_C	1.088	1.00
339_M	370_A	1.085	1.00
338_L	350_A	1.084	1.00
207_L	211_P	1.068	1.00
152_T	155_V	1.065	1.00
104_E	108_A	1.057	1.00
273_L	278_D	1.053	1.00
338_L	343_E	1.050	1.00
233_I	268_A	1.047	1.00
122_L	126_E	1.042	1.00
138_N	166_R	1.041	1.00
287_I	312_Q	1.037	1.00
365_A	369_D	1.028	1.00
348_S	371_L	1.027	1.00
196_A	200_T	1.027	1.00
364_Y	386_D	1.027	1.00
369_D	384_R	1.025	1.00
249_R	272_H	1.022	1.00
300_L	333_T	1.020	1.00
368_A	383_M	1.019	1.00
314_E	338_L	1.018	1.00
367_L	371_L	1.018	1.00
180_L	189_V	1.016	1.00
348_S	374_L	1.013	1.00
270_A	289_G	1.013	1.00
300_L	304_R	1.011	1.00
118_V	144_A	1.007	1.00
210_I	234_G	1.005	1.00
327_R	330_L	1.004	1.00
197_Y	202_A	1.004	1.00
179_L	189_V	1.001	1.00
160_V	179_L	0.997	1.00
138_N	162_L	0.993	1.00
255_Q	265_L	0.992	1.00
110_N	120_N	0.992	1.00
346_E	349_L	0.991	1.00
271_E	286_I	0.988	1.00
136_R	139_Q	0.987	1.00
335_G	354_A	0.981	1.00
194_E	206_L	0.979	1.00
302_I	316_V	0.964	1.00
190_L	212_S	0.964	1.00
127_A	131_R	0.960	1.00
92_L	107_M	0.960	1.00
205_S	208_D	0.958	1.00
204_S	242_D	0.956	1.00
194_E	213_M	0.953	1.00
331_W	353_A	0.950	1.00
212_S	215_K	0.950	1.00
283_Q	302_I	0.948	1.00
332_S	336_Q	0.945	1.00
379_E	382_A	0.945	1.00
274_I	286_I	0.944	1.00
164_L	192_L	0.943	1.00
217_H	220_D	0.940	1.00
121_Y	143_R	0.939	1.00
125_A	144_A	0.936	1.00
366_W	369_D	0.929	1.00
117_P	120_N	0.929	1.00
145_A	155_V	0.924	1.00
339_M	344_W	0.922	1.00
318_R	346_E	0.919	1.00
138_N	163_Q	0.917	1.00
135_A	166_R	0.917	1.00
179_L	182_V	0.912	1.00
298_L	301_P	0.908	1.00
288_D	292_R	0.903	1.00
351_F	370_A	0.899	1.00
332_S	363_D	0.899	1.00
289_G	292_R	0.899	1.00
87_Q	110_N	0.898	1.00
187_P	213_M	0.897	1.00
145_A	156_E	0.895	1.00
253_K	281_T	0.894	1.00
129_Q	141_L	0.890	1.00
88_T	92_L	0.890	1.00
109_K	112_D	0.889	1.00
239_A	244_G	0.886	1.00
91_A	103_V	0.881	1.00
355_L	364_Y	0.878	1.00
92_L	123_L	0.878	1.00
352_R	356_K	0.874	1.00
355_L	363_D	0.866	1.00
259_T	262_Q	0.865	1.00
180_L	190_L	0.863	1.00
336_Q	351_F	0.860	1.00
156_E	179_L	0.859	1.00
251_W	255_Q	0.857	1.00
164_L	196_A	0.853	1.00
106_L	110_N	0.853	1.00
137_A	141_L	0.850	1.00
95_L	123_L	0.849	1.00
114_A	117_P	0.844	1.00
148_A	152_T	0.844	1.00
212_S	216_A	0.841	1.00
87_Q	113_H	0.839	1.00
160_V	172_A	0.839	1.00
173_R	197_Y	0.834	1.00
178_K	181_E	0.834	1.00
256_S	266_Q	0.831	1.00
129_Q	158_T	0.830	1.00
353_A	357_Q	0.830	1.00
344_W	370_A	0.823	1.00
232_W	255_Q	0.819	1.00
312_Q	315_K	0.817	1.00
122_L	158_T	0.817	1.00
207_L	238_Q	0.813	1.00
239_A	251_W	0.811	1.00
190_L	213_M	0.811	1.00
298_L	302_I	0.804	1.00
213_M	216_A	0.804	1.00
175_G	179_L	0.803	1.00
157_I	192_L	0.796	1.00
283_Q	307_T	0.794	1.00
352_R	371_L	0.794	1.00
207_L	239_A	0.794	1.00
247_G	250_N	0.794	1.00
95_L	100_Y	0.792	1.00
134_E	162_L	0.792	1.00
286_I	301_P	0.789	1.00
144_A	147_L	0.789	1.00
266_Q	288_D	0.789	1.00
161_R	192_L	0.786	1.00
248_L	272_H	0.786	1.00
107_M	111_A	0.780	1.00
281_T	284_Q	0.780	1.00
109_K	113_H	0.780	1.00
207_L	235_L	0.779	1.00
121_Y	144_A	0.777	1.00
121_Y	147_L	0.776	1.00
255_Q	258_K	0.776	1.00
352_R	379_E	0.773	1.00
310_P	337_S	0.773	1.00
93_L	97_E	0.771	1.00
238_Q	242_D	0.770	1.00
95_L	127_A	0.768	1.00
90_Q	93_L	0.768	1.00
183_T	186_H	0.767	1.00
267_V	301_P	0.765	1.00
280_D	307_T	0.760	1.00
262_Q	265_L	0.756	1.00
100_Y	127_A	0.756	1.00
339_M	366_W	0.751	1.00
344_W	374_L	0.750	1.00
335_G	350_A	0.749	1.00
164_L	176_V	0.747	1.00
87_Q	109_K	0.746	1.00
142_E	146_E	0.746	1.00
140_H	144_A	0.744	1.00
206_L	210_I	0.742	1.00
337_S	341_H	0.741	1.00
318_R	322_K	0.739	1.00
283_Q	309_N	0.739	1.00
320_Q	330_L	0.738	1.00
123_L	126_E	0.735	1.00
111_A	121_Y	0.735	1.00
237_D	268_A	0.727	1.00
209_I	213_M	0.725	1.00
144_A	155_V	0.723	1.00
304_R	317_L	0.723	1.00
313_L	317_L	0.721	1.00
344_W	373_R	0.716	1.00
156_E	178_K	0.713	1.00
143_R	147_L	0.712	1.00
240_R	252_W	0.707	1.00
279_H	283_Q	0.706	1.00
339_M	373_R	0.705	1.00
333_T	366_W	0.704	1.00
214_A	232_W	0.703	1.00
86_K	93_L	0.702	1.00
110_N	113_H	0.702	1.00
363_D	366_W	0.700	1.00
272_H	276_C	0.698	1.00
88_T	117_P	0.696	1.00
318_R	338_L	0.695	1.00
266_Q	289_G	0.695	1.00
348_S	376_K	0.694	1.00
245_S	272_H	0.693	1.00
301_P	304_R	0.693	1.00
331_W	357_Q	0.690	1.00
207_L	242_D	0.690	1.00
169_N	196_A	0.687	1.00
270_A	285_I	0.686	1.00
160_V	175_G	0.686	1.00
236_M	248_L	0.684	1.00
332_S	354_A	0.683	1.00
232_W	254_N	0.682	1.00
129_Q	162_L	0.682	1.00
385_R	389_M	0.679	1.00
86_K	90_Q	0.678	1.00
191_R	195_Q	0.674	1.00
338_L	341_H	0.673	1.00
319_Q	323_N	0.673	1.00
171_A	174_H	0.669	1.00
331_W	354_A	0.668	1.00
290_L	299_L	0.667	1.00
248_L	252_W	0.665	1.00
382_A	386_D	0.665	1.00
157_I	189_V	0.665	1.00
122_L	155_V	0.664	1.00
192_L	195_Q	0.662	0.99
364_Y	387_G	0.655	0.99
271_E	301_P	0.651	0.99
267_V	271_E	0.650	0.99
289_G	298_L	0.649	0.99
361_A	387_G	0.648	0.99
177_D	181_E	0.646	0.99
328_P	354_A	0.644	0.99
314_E	343_E	0.642	0.99
139_Q	143_R	0.641	0.99
178_K	182_V	0.641	0.99
88_T	120_N	0.640	0.99
354_A	357_Q	0.638	0.99
125_A	140_H	0.637	0.99
297_R	300_L	0.637	0.99
310_P	340_K	0.636	0.99
157_I	160_V	0.636	0.99
191_R	234_G	0.635	0.99
314_E	317_L	0.635	0.99
233_I	237_D	0.634	0.99
92_L	96_A	0.631	0.99
331_W	364_Y	0.631	0.99
134_E	166_R	0.630	0.99
125_A	137_A	0.629	0.99
126_E	141_L	0.628	0.99
91_A	123_L	0.627	0.99
303_P	320_Q	0.626	0.99
254_N	258_K	0.624	0.99
87_Q	90_Q	0.622	0.99
122_L	144_A	0.615	0.99
204_S	208_D	0.613	0.99
126_E	158_T	0.611	0.99
170_H	174_H	0.610	0.99
349_L	353_A	0.609	0.99
252_W	256_S	0.608	0.99
175_G	178_K	0.607	0.99
370_A	374_L	0.606	0.99
137_A	162_L	0.604	0.99
161_R	176_V	0.603	0.99
298_L	303_P	0.603	0.99
213_M	231_A	0.602	0.99
120_N	123_L	0.600	0.99
208_D	212_S	0.600	0.99
335_G	347_A	0.599	0.99
123_L	158_T	0.599	0.99
177_D	205_S	0.598	0.99
328_P	358_R	0.598	0.99
157_I	179_L	0.596	0.99
203_W	238_Q	0.595	0.99
107_M	127_A	0.595	0.99
195_Q	210_I	0.594	0.99
88_T	107_M	0.594	0.99
299_L	319_Q	0.592	0.99
117_P	121_Y	0.591	0.99
145_A	159_R	0.589	0.99
214_A	231_A	0.585	0.99
138_N	168_E	0.584	0.99
304_R	333_T	0.582	0.99
361_A	368_A	0.580	0.99
122_L	152_T	0.579	0.99
316_V	320_Q	0.578	0.99
237_D	252_W	0.578	0.99
194_E	209_I	0.576	0.99
382_A	385_R	0.576	0.99
191_R	213_M	0.574	0.99
153_I	183_T	0.573	0.99
270_A	282_A	0.573	0.99
290_L	298_L	0.572	0.99
209_I	212_S	0.571	0.99
102_Q	105_K	0.569	0.98
158_T	161_R	0.569	0.98
195_Q	234_G	0.567	0.98
240_R	268_A	0.566	0.98
198_I	210_I	0.566	0.98
111_A	124_A	0.566	0.98
169_N	199_R	0.565	0.98
344_W	348_S	0.563	0.98
157_I	186_H	0.562	0.98
240_R	272_H	0.562	0.98
156_E	182_V	0.562	0.98
287_I	291_K	0.559	0.98
365_A	384_R	0.559	0.98
274_I	279_H	0.559	0.98
330_L	333_T	0.552	0.98
279_H	307_T	0.548	0.98
365_A	387_G	0.548	0.98
139_Q	142_E	0.546	0.98
108_A	112_D	0.545	0.98
102_Q	106_L	0.544	0.98
206_L	238_Q	0.542	0.98
297_R	301_P	0.542	0.98
250_N	254_N	0.539	0.98
95_L	130_Q	0.538	0.98
245_S	275_E	0.535	0.98
240_R	245_S	0.533	0.98
106_L	109_K	0.533	0.98
329_L	362_Y	0.532	0.98
100_Y	131_R	0.531	0.98
80_K	83_R	0.530	0.98
88_T	123_L	0.530	0.98
126_E	130_Q	0.530	0.98
190_L	266_Q	0.529	0.98
89_E	92_L	0.528	0.98
350_A	354_A	0.528	0.98
349_L	352_R	0.527	0.97
236_M	251_W	0.526	0.97
333_T	336_Q	0.526	0.97
285_I	288_D	0.524	0.97
91_A	106_L	0.522	0.97
180_L	193_A	0.521	0.97
283_Q	286_I	0.519	0.97
118_V	125_A	0.518	0.97
203_W	207_L	0.517	0.97
262_Q	266_Q	0.517	0.97
195_Q	199_R	0.516	0.97
88_T	110_N	0.514	0.97
152_T	156_E	0.514	0.97
220_D	231_A	0.514	0.97
350_A	353_A	0.511	0.97
161_R	165_A	0.511	0.97
211_P	215_K	0.511	0.97
313_L	320_Q	0.510	0.97
157_I	161_R	0.508	0.97
355_L	367_L	0.508	0.97
129_Q	134_E	0.506	0.97
336_Q	339_M	0.505	0.97
299_L	302_I	0.503	0.97
369_D	373_R	0.502	0.97
103_V	107_M	0.501	0.97
305_L	312_Q	0.500	0.97
266_Q	292_R	0.500	0.97

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
1w3bA	2	0.9271	100	0.319	Contact Map
2y4tA	1	0.7764	100	0.34	Contact Map
3iegA	1	0.7739	100	0.363	Contact Map
4ui9C	2	0.9372	100	0.368	Contact Map
5aioA	1	0.7613	100	0.375	Contact Map
4ui9J	2	0.9497	100	0.378	Contact Map
4ui9X	2	0.9548	100	0.381	Contact Map
4rg9A	2	0.8593	100	0.395	Contact Map
4kvmA	3	0.897	100	0.395	Contact Map
4jsnB	1	0.7563	100	0.402	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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