HISM - ECOLI - GREMLIN Contacts

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HISM - Histidine transport system permease protein HisM

UniProt:	P0AEU3	Sequences: MIEILHEYWKPLLWTDGYRFTGVAITLWLLILSVVIGGVLALFLAIGRVSSNKYIQFPIWLFTYIFRGTPLYVQLLVFYSGMYTLEIVKGTEFLNAFFRSGLNCTVLALTLNTCAYTTEIFAGAIRSVPHGEIEAARAYGFSTFKMYRCIILPSALRIALPAYSNEVILMLHSTALAFTATVPDLLKIARDINAATYQPFTAFGIAAVLYLIISYVLISLFRRAEKRWLQHVKPSSTH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10007
Length:	238 (206)
Sequences:	18004 (10543)
Seq/√Len:	734.6

ECOLI - HISM ARTQ GLTJ HISQ ARTM GLTK YHDY YHDX YECS GLNP
BACSU - TCYM GLNM YCKA GLNP ARTQ YXEN TCYL TCYB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
164_S	221_F	3.324	1.00
198_Q	201_T	3.211	1.00
36_I	110_T	3.199	1.00
105_T	177_A	2.954	1.00
136_A	146_M	2.927	1.00
189_A	206_A	2.832	1.00
142_S	145_K	2.713	1.00
24_A	28_W	2.684	1.00
47_G	59_I	2.529	1.00
44_L	118_T	2.387	1.00
132_E	154_S	2.379	1.00
133_I	146_M	2.222	1.00
69_T	74_Q	2.213	1.00
144_F	148_R	2.126	1.00
54_Y	58_P	2.096	1.00
219_S	223_R	2.081	1.00
137_R	146_M	2.061	1.00
44_L	114_C	2.005	1.00
54_Y	57_F	1.949	1.00
187_K	191_D	1.912	1.00
48_R	60_W	1.881	1.00
133_I	137_R	1.878	1.00
40_L	114_C	1.810	1.00
124_A	159_A	1.769	1.00
25_I	28_W	1.756	1.00
20_F	24_A	1.747	1.00
193_N	199_P	1.742	1.00
127_S	158_I	1.737	1.00
32_L	106_V	1.726	1.00
53_K	57_F	1.722	1.00
23_V	213_I	1.717	1.00
100_S	103_N	1.713	1.00
45_A	121_F	1.707	1.00
30_L	171_L	1.704	1.00
28_W	102_L	1.699	1.00
29_L	177_A	1.674	1.00
211_L	215_Y	1.666	1.00
215_Y	219_S	1.663	1.00
189_A	202_A	1.663	1.00
78_F	108_A	1.649	1.00
223_R	226_K	1.638	1.00
142_S	146_M	1.636	1.00
63_T	118_T	1.635	1.00
49_V	126_R	1.590	1.00
21_T	24_A	1.569	1.00
219_S	222_R	1.554	1.00
37_G	113_T	1.536	1.00
119_E	122_A	1.510	1.00
117_T	163_Y	1.497	1.00
34_V	167_V	1.492	1.00
25_I	182_V	1.471	1.00
44_L	59_I	1.451	1.00
143_T	147_Y	1.440	1.00
145_K	149_C	1.419	1.00
18_Y	21_T	1.413	1.00
220_L	223_R	1.400	1.00
30_L	174_T	1.380	1.00
145_K	148_R	1.373	1.00
42_L	121_F	1.355	1.00
52_N	57_F	1.334	1.00
137_R	143_T	1.316	1.00
53_K	56_Q	1.301	1.00
74_Q	112_N	1.285	1.00
43_F	47_G	1.280	1.00
102_L	106_V	1.260	1.00
121_F	159_A	1.257	1.00
141_F	145_K	1.253	1.00
32_L	110_T	1.227	1.00
16_D	20_F	1.223	1.00
66_F	111_L	1.222	1.00
57_F	61_L	1.212	1.00
117_T	166_E	1.212	1.00
69_T	112_N	1.189	1.00
133_I	151_I	1.186	1.00
188_I	191_D	1.182	1.00
39_V	43_F	1.181	1.00
48_R	119_E	1.165	1.00
56_Q	60_W	1.159	1.00
58_P	61_L	1.158	1.00
52_N	55_I	1.156	1.00
193_N	203_F	1.154	1.00
75_L	108_A	1.143	1.00
136_A	150_I	1.142	1.00
28_W	32_L	1.129	1.00
125_I	151_I	1.126	1.00
183_P	187_K	1.122	1.00
120_I	166_E	1.105	1.00
18_Y	188_I	1.103	1.00
187_K	190_R	1.103	1.00
47_G	50_S	1.098	1.00
122_A	126_R	1.096	1.00
21_T	25_I	1.092	1.00
36_I	106_V	1.081	1.00
64_Y	215_Y	1.080	1.00
223_R	227_R	1.080	1.00
106_V	110_T	1.075	1.00
41_A	117_T	1.075	1.00
171_L	213_I	1.071	1.00
49_V	125_I	1.060	1.00
58_P	62_F	1.060	1.00
103_N	106_V	1.056	1.00
120_I	162_A	1.045	1.00
101_G	181_T	1.032	1.00
147_Y	152_L	1.016	1.00
102_L	182_V	1.012	1.00
78_F	104_C	1.007	1.00
59_I	118_T	1.006	1.00
75_L	177_A	1.002	1.00
177_A	184_D	0.978	1.00
128_V	155_A	0.975	1.00
64_Y	211_L	0.966	1.00
61_L	64_Y	0.964	1.00
74_Q	78_F	0.959	1.00
222_R	226_K	0.957	1.00
26_T	171_L	0.953	1.00
190_R	193_N	0.950	1.00
220_L	224_A	0.949	1.00
171_L	217_L	0.948	1.00
143_T	146_M	0.945	1.00
17_G	21_T	0.939	1.00
191_D	195_A	0.934	1.00
192_I	202_A	0.932	1.00
66_F	115_A	0.922	1.00
201_T	204_G	0.921	1.00
30_L	167_V	0.916	1.00
33_S	110_T	0.907	1.00
81_G	85_L	0.903	1.00
34_V	170_M	0.903	1.00
128_V	158_I	0.900	1.00
141_F	149_C	0.900	1.00
169_L	173_S	0.898	1.00
131_G	135_A	0.896	1.00
175_A	210_Y	0.889	1.00
75_L	176_L	0.888	1.00
62_F	114_C	0.886	1.00
222_R	225_E	0.867	1.00
51_S	56_Q	0.866	1.00
171_L	214_S	0.864	1.00
38_G	163_Y	0.864	1.00
147_Y	151_I	0.861	1.00
23_V	209_L	0.860	1.00
45_A	49_V	0.858	1.00
103_N	107_L	0.841	1.00
57_F	60_W	0.841	1.00
47_G	55_I	0.840	1.00
32_L	36_I	0.838	1.00
71_L	112_N	0.835	1.00
71_L	173_S	0.826	1.00
35_V	39_V	0.826	1.00
52_N	58_P	0.826	1.00
113_T	166_E	0.826	1.00
216_V	220_L	0.824	1.00
77_V	81_G	0.824	1.00
101_G	182_V	0.821	1.00
22_G	188_I	0.818	1.00
109_L	174_T	0.813	1.00
76_L	80_S	0.809	1.00
62_F	66_F	0.805	1.00
212_I	216_V	0.803	1.00
133_I	143_T	0.800	1.00
105_T	180_A	0.799	1.00
130_H	134_E	0.799	1.00
196_T	199_P	0.798	1.00
50_S	59_I	0.797	1.00
179_T	183_P	0.792	1.00
48_R	63_T	0.788	1.00
50_S	143_T	0.785	1.00
45_A	125_I	0.785	1.00
79_Y	180_A	0.785	1.00
31_I	35_V	0.783	1.00
158_I	162_A	0.782	1.00
79_Y	104_C	0.778	1.00
204_G	208_V	0.776	1.00
62_F	115_A	0.761	1.00
27_L	31_I	0.760	1.00
23_V	185_L	0.755	1.00
74_Q	108_A	0.749	1.00
177_A	182_V	0.743	1.00
46_I	147_Y	0.740	1.00
26_T	30_L	0.739	1.00
26_T	210_Y	0.737	1.00
113_T	173_S	0.737	1.00
75_L	180_A	0.736	1.00
48_R	56_Q	0.735	1.00
60_W	64_Y	0.735	1.00
185_L	209_L	0.735	1.00
32_L	102_L	0.733	1.00
189_A	193_N	0.732	1.00
125_I	155_A	0.730	1.00
186_L	203_F	0.729	1.00
52_N	56_Q	0.723	1.00
183_P	188_I	0.720	1.00
117_T	121_F	0.716	1.00
72_Y	179_T	0.714	1.00
33_S	170_M	0.710	1.00
25_I	184_D	0.705	1.00
77_V	204_G	0.700	1.00
17_G	20_F	0.697	1.00
208_V	212_I	0.695	1.00
42_L	152_L	0.695	1.00
37_G	117_T	0.694	1.00
193_N	202_A	0.692	1.00
109_L	170_M	0.690	1.00
99_R	103_N	0.687	1.00
161_P	225_E	0.685	1.00
40_L	110_T	0.683	1.00
130_H	133_I	0.682	1.00
40_L	44_L	0.682	1.00
205_I	209_L	0.681	1.00
29_L	182_V	0.679	1.00
186_L	206_A	0.674	1.00
178_F	187_K	0.672	1.00
195_A	198_Q	0.666	1.00
29_L	33_S	0.664	1.00
55_I	58_P	0.662	1.00
186_L	210_Y	0.662	1.00
29_L	105_T	0.662	1.00
124_A	158_I	0.661	1.00
175_A	178_F	0.661	1.00
82_M	86_E	0.660	1.00
175_A	186_L	0.657	1.00
32_L	35_V	0.657	1.00
44_L	47_G	0.656	1.00
121_F	125_I	0.653	1.00
224_A	228_W	0.648	1.00
110_T	114_C	0.645	1.00
25_I	102_L	0.644	1.00
82_M	87_I	0.641	1.00
131_G	134_E	0.636	1.00
29_L	174_T	0.629	1.00
113_T	170_M	0.627	1.00
79_Y	99_R	0.624	1.00
101_G	180_A	0.621	1.00
160_L	224_A	0.621	1.00
125_I	147_Y	0.620	1.00
48_R	51_S	0.618	1.00
33_S	109_L	0.618	1.00
66_F	74_Q	0.617	1.00
113_T	117_T	0.614	1.00
15_T	192_I	0.614	1.00
112_N	173_S	0.611	1.00
218_I	222_R	0.610	1.00
36_I	40_L	0.609	1.00
19_R	209_L	0.609	1.00
160_L	228_W	0.606	1.00
60_W	63_T	0.605	1.00
42_L	156_L	0.597	1.00
200_F	204_G	0.596	1.00
136_A	141_F	0.593	1.00
48_R	118_T	0.593	1.00
81_G	84_T	0.591	1.00
130_H	137_R	0.587	1.00
203_F	206_A	0.587	1.00
36_I	39_V	0.585	1.00
109_L	177_A	0.583	1.00
166_E	169_L	0.581	1.00
79_Y	101_G	0.580	1.00
206_A	209_L	0.576	1.00
38_G	121_F	0.575	1.00
178_F	181_T	0.574	1.00
47_G	58_P	0.571	1.00
44_L	62_F	0.570	1.00
216_V	223_R	0.569	1.00
39_V	110_T	0.569	1.00
39_V	42_L	0.568	1.00
162_A	165_N	0.568	1.00
51_S	54_Y	0.568	1.00
134_E	149_C	0.567	1.00
128_V	151_I	0.564	1.00
151_I	154_S	0.563	1.00
124_A	162_A	0.563	1.00
18_Y	22_G	0.561	1.00
142_S	149_C	0.560	1.00
168_I	217_L	0.559	1.00
30_L	34_V	0.559	1.00
112_N	166_E	0.558	1.00
157_R	228_W	0.557	1.00
105_T	182_V	0.557	1.00
24_A	27_L	0.557	1.00
167_V	217_L	0.554	1.00
217_L	221_F	0.553	1.00
20_F	23_V	0.548	1.00
83_Y	99_R	0.545	1.00
28_W	103_N	0.544	1.00
22_G	25_I	0.544	1.00
72_Y	76_L	0.539	1.00
51_S	143_T	0.538	1.00
211_L	214_S	0.535	1.00
19_R	189_A	0.533	1.00
72_Y	176_L	0.532	1.00
216_V	219_S	0.531	1.00
59_I	63_T	0.528	1.00
18_Y	191_D	0.523	1.00
19_R	192_I	0.522	1.00
78_F	81_G	0.520	1.00
133_I	147_Y	0.520	1.00
168_I	214_S	0.520	1.00
40_L	43_F	0.520	1.00
141_F	146_M	0.517	1.00
65_I	69_T	0.513	1.00
146_M	151_I	0.511	1.00
61_L	65_I	0.509	1.00
50_S	56_Q	0.509	1.00
123_G	162_A	0.508	1.00
59_I	62_F	0.507	1.00
55_I	59_I	0.506	1.00
156_L	228_W	0.504	1.00
50_S	53_K	0.501	0.99
202_A	206_A	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
4ymuD	2	0.9034	100	0.533	Contact Map
3tuiA	2	0.8782	99.9	0.6	Contact Map
2onkC	2	0.9412	99.9	0.614	Contact Map
3d31C	2	0.9244	99.9	0.628	Contact Map
3rlfF	1	0.9202	99.9	0.631	Contact Map
4tquM	1	0.9496	99.9	0.651	Contact Map
3rlfG	1	0.9622	99.9	0.655	Contact Map
4tquN	1	0.895	99.8	0.692	Contact Map
2kv5A	1	0.1387	7.8	0.961	Contact Map
4gxbB	1	0.0042	7.4	0.961	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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