FHUD - ECOLI - GREMLIN Contacts

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FHUD - Iron(3+)-hydroxamate-binding protein FhuD

UniProt:	P07822	Sequences: MSGLPLISRRRLLTAMALSPLLWQMNTAHAAAIDPNRIVALEWLPVELLLALGIVPYGVADTINYRLWVSEPPLPDSVIDVGLRTEPNLELLTEMKPSFMVWSAGYGPSPEMLARIAPGRGFNFSDGKQPLAMARKSLTEMADLLNLQSAAETHLAQYEDFIRSMKPRFVKRGARPLLLTTLIDPRHMLVFGPNSLFQEILDEYGIPNAWQGETNFWGSTAVSIDRLAAYKDVDVLCFDHDNSKDMDALMATPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRVLDNAIGGKA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10305
Length:	296 (268)
Sequences:	14585 (11330)
Seq/√Len:	692.1

ECOLI - FHUD FECB FEPB BTUF
BACSU - YFIY FHUD YFMC YVRC YXEB YHFQ YCLQ FEUA BTR
HALSA - BTUFA Q9HMF9 Q9HMG8 Q9HPB0 Q9HSB2
SULSO - Q980Z0 Q97ZU2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
139_T	152_E	4.029	1.00
135_R	159_E	3.992	1.00
142_A	151_A	3.932	1.00
231_K	259_P	3.875	1.00
147_L	150_A	3.458	1.00
143_D	148_Q	3.125	1.00
161_F	286_R	3.104	1.00
259_P	263_A	3.005	1.00
40_A	46_V	2.915	1.00
139_T	155_L	2.851	1.00
150_A	153_T	2.705	1.00
163_R	167_P	2.561	1.00
201_L	206_I	2.499	1.00
156_A	160_D	2.462	1.00
91_L	94_E	2.430	1.00
152_E	156_A	2.408	1.00
23_W	28_A	2.396	1.00
226_R	229_A	2.385	1.00
198_Q	202_D	2.170	1.00
38_I	145_L	2.147	1.00
39_V	92_L	2.108	1.00
54_I	145_L	2.061	1.00
49_L	145_L	2.047	1.00
54_I	147_L	2.018	1.00
37_R	57_Y	2.017	1.00
247_D	251_A	1.997	1.00
250_M	264_G	1.979	1.00
159_E	163_R	1.949	1.00
164_S	168_R	1.934	1.00
48_L	138_L	1.928	1.00
160_D	164_S	1.891	1.00
161_F	282_M	1.883	1.00
233_V	259_P	1.880	1.00
112_M	115_R	1.879	1.00
176_P	207_P	1.855	1.00
27_T	114_A	1.834	1.00
234_D	267_Q	1.818	1.00
101_V	141_M	1.764	1.00
24_Q	29_H	1.758	1.00
153_T	157_Q	1.754	1.00
21_L	28_A	1.740	1.00
110_P	114_A	1.719	1.00
246_M	250_M	1.718	1.00
133_M	136_K	1.697	1.00
234_D	265_R	1.667	1.00
258_M	261_V	1.665	1.00
58_G	95_M	1.657	1.00
163_R	166_K	1.647	1.00
149_S	153_T	1.632	1.00
111_E	115_R	1.627	1.00
259_P	262_R	1.589	1.00
157_Q	161_F	1.569	1.00
150_A	154_H	1.569	1.00
247_D	250_M	1.556	1.00
87_P	92_L	1.522	1.00
257_A	262_R	1.515	1.00
136_K	139_T	1.510	1.00
135_R	155_L	1.458	1.00
136_K	140_E	1.436	1.00
88_N	91_L	1.418	1.00
224_I	252_T	1.401	1.00
57_Y	95_M	1.395	1.00
165_M	289_D	1.393	1.00
20_P	28_A	1.390	1.00
79_I	91_L	1.381	1.00
39_V	95_M	1.375	1.00
120_R	140_E	1.369	1.00
148_Q	152_E	1.367	1.00
267_Q	291_A	1.365	1.00
286_R	290_N	1.364	1.00
226_R	230_Y	1.359	1.00
102_W	121_G	1.356	1.00
287_V	290_N	1.348	1.00
60_A	63_I	1.347	1.00
40_A	49_L	1.346	1.00
187_H	221_A	1.340	1.00
93_T	116_I	1.331	1.00
156_A	159_E	1.329	1.00
111_E	114_A	1.319	1.00
154_H	157_Q	1.309	1.00
22_L	28_A	1.304	1.00
167_P	170_V	1.300	1.00
235_V	260_F	1.300	1.00
139_T	159_E	1.297	1.00
99_F	120_R	1.287	1.00
255_W	261_V	1.285	1.00
140_E	143_D	1.284	1.00
52_L	147_L	1.268	1.00
209_A	230_Y	1.266	1.00
89_L	112_M	1.265	1.00
120_R	144_L	1.253	1.00
161_F	164_S	1.252	1.00
39_V	58_G	1.249	1.00
178_L	181_T	1.247	1.00
149_S	152_E	1.244	1.00
160_D	163_R	1.243	1.00
100_M	117_A	1.243	1.00
90_E	225_D	1.235	1.00
138_L	151_A	1.232	1.00
168_R	289_D	1.231	1.00
31_A	34_D	1.222	1.00
193_P	202_D	1.214	1.00
166_K	203_E	1.204	1.00
164_S	167_P	1.199	1.00
210_W	230_Y	1.183	1.00
155_L	159_E	1.177	1.00
107_G	111_E	1.171	1.00
165_M	285_V	1.165	1.00
49_L	54_I	1.155	1.00
73_P	76_D	1.155	1.00
177_L	206_I	1.149	1.00
106_Y	109_S	1.135	1.00
36_N	98_S	1.134	1.00
35_P	98_S	1.129	1.00
282_M	286_R	1.128	1.00
177_L	180_T	1.113	1.00
157_Q	160_D	1.105	1.00
36_N	55_V	1.103	1.00
51_A	154_H	1.085	1.00
37_R	96_K	1.071	1.00
212_G	230_Y	1.059	1.00
174_A	207_P	1.051	1.00
248_A	251_A	1.046	1.00
18_L	33_I	1.042	1.00
175_R	234_D	1.042	1.00
283_H	287_V	1.041	1.00
207_P	211_Q	1.017	1.00
255_W	258_M	1.012	1.00
278_T	282_M	1.004	1.00
61_D	80_D	0.998	1.00
161_F	165_M	0.988	1.00
237_C	268_R	0.987	1.00
166_K	170_V	0.973	1.00
38_I	99_F	0.972	1.00
56_P	78_V	0.966	1.00
158_Y	203_E	0.956	1.00
253_P	256_Q	0.949	1.00
285_V	289_D	0.945	1.00
52_L	154_H	0.945	1.00
49_L	101_V	0.943	1.00
178_L	232_D	0.936	1.00
49_L	56_P	0.934	1.00
55_V	147_L	0.933	1.00
162_I	166_K	0.932	1.00
140_E	144_L	0.928	1.00
199_E	202_D	0.917	1.00
40_A	56_P	0.917	1.00
139_T	143_D	0.916	1.00
109_S	112_M	0.914	1.00
169_F	172_R	0.914	1.00
59_V	78_V	0.912	1.00
199_E	203_E	0.904	1.00
261_V	266_F	0.903	1.00
23_W	27_T	0.902	1.00
34_D	147_L	0.901	1.00
236_L	288_L	0.900	1.00
122_F	140_E	0.899	1.00
59_V	80_D	0.896	1.00
19_S	34_D	0.895	1.00
137_S	140_E	0.891	1.00
177_L	181_T	0.891	1.00
178_L	182_L	0.883	1.00
151_A	155_L	0.882	1.00
280_S	283_H	0.876	1.00
141_M	145_L	0.875	1.00
210_W	226_R	0.875	1.00
48_L	141_M	0.872	1.00
50_L	56_P	0.870	1.00
23_W	26_N	0.867	1.00
20_P	30_A	0.864	1.00
162_I	285_V	0.863	1.00
31_A	118_P	0.862	1.00
227_L	258_M	0.857	1.00
93_T	117_A	0.852	1.00
50_L	69_V	0.850	1.00
250_M	266_F	0.846	1.00
19_S	30_A	0.846	1.00
256_Q	261_V	0.843	1.00
114_A	119_G	0.841	1.00
31_A	35_P	0.833	1.00
38_I	49_L	0.833	1.00
179_L	201_L	0.832	1.00
161_F	283_H	0.831	1.00
169_F	289_D	0.828	1.00
259_P	265_R	0.825	1.00
19_S	33_I	0.824	1.00
22_L	27_T	0.824	1.00
101_V	144_L	0.821	1.00
142_A	155_L	0.820	1.00
51_A	138_L	0.818	1.00
135_R	139_T	0.812	1.00
158_Y	162_I	0.812	1.00
19_S	22_L	0.800	1.00
24_Q	27_T	0.799	1.00
75_P	78_V	0.794	1.00
21_L	30_A	0.793	1.00
237_C	266_F	0.790	1.00
24_Q	110_P	0.785	1.00
176_P	233_V	0.785	1.00
19_S	143_D	0.781	1.00
161_F	289_D	0.779	1.00
141_M	144_L	0.778	1.00
153_T	156_A	0.778	1.00
152_E	155_L	0.777	1.00
18_L	30_A	0.774	1.00
79_I	82_G	0.772	1.00
35_P	99_F	0.767	1.00
276_G	279_L	0.763	1.00
104_A	123_N	0.761	1.00
81_V	95_M	0.760	1.00
139_T	142_A	0.755	1.00
236_L	267_Q	0.754	1.00
66_R	69_V	0.751	1.00
132_A	136_K	0.751	1.00
234_D	292_I	0.746	1.00
97_P	100_M	0.746	1.00
41_L	100_M	0.745	1.00
74_L	78_V	0.743	1.00
25_M	114_A	0.741	1.00
45_P	101_V	0.741	1.00
232_D	235_V	0.740	1.00
52_L	145_L	0.739	1.00
34_D	146_N	0.737	1.00
92_L	113_L	0.735	1.00
19_S	23_W	0.735	1.00
33_I	36_N	0.731	1.00
228_A	257_A	0.726	1.00
19_S	32_A	0.726	1.00
53_G	147_L	0.725	1.00
162_I	203_E	0.725	1.00
52_L	142_A	0.724	1.00
132_A	135_R	0.723	1.00
287_V	291_A	0.722	1.00
252_T	256_Q	0.721	1.00
145_L	148_Q	0.716	1.00
228_A	232_D	0.713	1.00
206_I	292_I	0.712	1.00
65_Y	68_W	0.712	1.00
52_L	150_A	0.710	1.00
190_V	210_W	0.710	1.00
277_A	280_S	0.708	1.00
285_V	290_N	0.705	1.00
65_Y	69_V	0.705	1.00
138_L	154_H	0.704	1.00
165_M	169_F	0.698	1.00
246_M	268_R	0.695	1.00
222_V	230_Y	0.695	1.00
191_F	219_S	0.695	1.00
83_L	86_E	0.695	1.00
99_F	144_L	0.689	1.00
18_L	21_L	0.688	1.00
234_D	238_F	0.683	1.00
18_L	34_D	0.683	1.00
122_F	141_M	0.682	1.00
135_R	162_I	0.679	1.00
223_S	226_R	0.677	1.00
90_E	93_T	0.674	1.00
279_L	283_H	0.673	1.00
39_V	97_P	0.670	1.00
110_P	121_G	0.667	1.00
193_P	211_Q	0.667	1.00
228_A	258_M	0.666	1.00
284_F	288_L	0.665	1.00
273_W	287_V	0.664	1.00
45_P	122_F	0.663	1.00
154_H	158_Y	0.656	1.00
25_M	121_G	0.656	1.00
191_F	195_S	0.655	1.00
51_A	279_L	0.655	1.00
200_I	285_V	0.654	1.00
53_G	150_A	0.653	1.00
134_A	158_Y	0.653	1.00
175_R	178_L	0.650	1.00
37_R	98_S	0.649	1.00
22_L	26_N	0.648	1.00
21_L	27_T	0.648	1.00
112_M	116_I	0.647	1.00
175_R	265_R	0.646	1.00
24_Q	28_A	0.646	1.00
177_L	201_L	0.646	1.00
277_A	281_A	0.646	1.00
180_T	183_I	0.645	1.00
20_P	27_T	0.643	1.00
18_L	146_N	0.638	1.00
271_A	274_F	0.638	1.00
235_V	255_W	0.637	1.00
108_P	111_E	0.637	1.00
157_Q	282_M	0.636	1.00
122_F	137_S	0.636	1.00
243_S	247_D	0.635	1.00
195_S	198_Q	0.633	1.00
75_P	79_I	0.633	1.00
29_H	120_R	0.630	1.00
26_N	29_H	0.628	1.00
210_W	222_V	0.626	1.00
178_L	190_V	0.626	1.00
47_E	280_S	0.625	1.00
58_G	82_G	0.624	1.00
39_V	100_M	0.621	1.00
139_T	148_Q	0.621	1.00
281_A	285_V	0.620	1.00
155_L	158_Y	0.618	1.00
135_R	158_Y	0.617	1.00
168_R	171_K	0.615	1.00
19_S	31_A	0.611	1.00
52_L	151_A	0.611	1.00
280_S	284_F	0.607	1.00
135_R	203_E	0.607	1.00
20_P	143_D	0.607	1.00
189_L	221_A	0.606	1.00
178_L	227_L	0.606	1.00
49_L	141_M	0.605	1.00
179_L	182_L	0.602	1.00
286_R	289_D	0.601	1.00
100_M	119_G	0.600	1.00
166_K	169_F	0.600	1.00
73_P	79_I	0.599	1.00
89_L	116_I	0.599	1.00
175_R	206_I	0.598	1.00
271_A	275_Y	0.595	1.00
283_H	286_R	0.595	1.00
252_T	255_W	0.595	1.00
18_L	32_A	0.595	1.00
24_Q	140_E	0.594	1.00
288_L	292_I	0.592	1.00
270_P	287_V	0.592	1.00
210_W	213_E	0.591	1.00
46_V	59_V	0.589	1.00
138_L	155_L	0.589	1.00
241_D	244_K	0.589	1.00
58_G	81_V	0.587	1.00
31_A	99_F	0.587	1.00
82_G	87_P	0.585	1.00
52_L	138_L	0.584	1.00
100_M	116_I	0.583	1.00
91_L	95_M	0.580	1.00
204_Y	289_D	0.580	1.00
238_F	269_V	0.579	1.00
194_N	198_Q	0.576	1.00
32_A	118_P	0.575	1.00
158_Y	161_F	0.574	1.00
184_D	187_H	0.572	1.00
279_L	282_M	0.571	1.00
40_A	45_P	0.568	1.00
174_A	177_L	0.567	1.00
100_M	113_L	0.567	1.00
130_P	133_M	0.566	1.00
52_L	141_M	0.566	1.00
21_L	120_R	0.564	1.00
89_L	92_L	0.562	1.00
278_T	281_A	0.561	1.00
154_H	278_T	0.560	1.00
50_L	78_V	0.560	1.00
45_P	48_L	0.558	1.00
79_I	95_M	0.552	1.00
170_V	173_G	0.548	1.00
282_M	285_V	0.548	1.00
179_L	238_F	0.548	1.00
198_Q	211_Q	0.547	1.00
93_T	225_D	0.547	1.00
74_L	77_S	0.546	1.00
34_D	98_S	0.544	1.00
166_K	204_Y	0.544	1.00
165_M	168_R	0.543	1.00
39_V	81_V	0.542	1.00
73_P	78_V	0.541	1.00
89_L	109_S	0.540	1.00
208_N	211_Q	0.539	1.00
134_A	138_L	0.539	1.00
180_T	235_V	0.539	1.00
47_E	277_A	0.536	1.00
104_A	107_G	0.534	1.00
176_P	180_T	0.533	1.00
224_I	255_W	0.530	1.00
26_N	107_G	0.530	1.00
182_L	185_P	0.530	1.00
48_L	51_A	0.527	1.00
195_S	219_S	0.526	1.00
114_A	118_P	0.523	1.00
35_P	145_L	0.523	1.00
27_T	110_P	0.523	1.00
159_E	162_I	0.522	1.00
206_I	234_D	0.520	1.00
125_S	133_M	0.520	1.00
244_K	248_A	0.519	1.00
278_T	284_F	0.516	0.99
108_P	112_M	0.514	0.99
23_W	29_H	0.512	0.99
72_P	75_P	0.511	0.99
31_A	144_L	0.510	0.99
213_E	220_T	0.509	0.99
240_H	243_S	0.508	0.99
62_T	80_D	0.508	0.99
31_A	120_R	0.507	0.99
72_P	76_D	0.506	0.99
29_H	118_P	0.506	0.99
180_T	190_V	0.506	0.99
179_L	197_F	0.505	0.99
45_P	141_M	0.504	0.99
191_F	197_F	0.504	0.99
231_K	235_V	0.502	0.99
188_M	191_F	0.500	0.99

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
3tnyA	1	0.9122	100	0.22	Contact Map
4hn9A	1	0.9493	100	0.228	Contact Map
3lhsA	1	0.9358	100	0.231	Contact Map
3tefA	1	0.9155	100	0.232	Contact Map
4mx8A	1	0.9392	100	0.236	Contact Map
4ovkA	1	0.9155	100	0.239	Contact Map
3gfvA	1	0.9324	100	0.24	Contact Map
3pshA	1	0.9257	100	0.245	Contact Map
3r5tA	1	0.9291	100	0.245	Contact Map
4m7oA	1	0.8378	100	0.245	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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