YJIA - ECOLI - GREMLIN Contacts

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YJIA - Uncharacterized GTP-binding protein YjiA

UniProt:	P24203	Sequences: MNPIAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEFGEVSVDDQLIGDRATQIKTLTNGCICCSRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGEAEKLHERLARINARAPVYTVTHGDIDLGLLFNTNGFMLEENVVSTKPRFHFIADKQNDISSIVVELDYPVDISEVSRVMENLLLESADKLLRYKGMLWIDGEPNRLLFQGVQRLYSADWDRPWGDEKPHSTMVFIGIQLPEEEIRAAFAGLRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10021
Length:	318 (301)
Sequences:	5739 (3621)
Seq/√Len:	208.7

ECOLI - YJIA YEIR
BACSU - YCIC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
170_H	184_T	5.936	1.00
306_E	310_R	5.134	1.00
156_L	185_V	4.463	1.00
132_A	163_A	3.859	1.00
229_V	314_A	3.227	1.00
132_A	157_L	3.070	1.00
158_T	185_V	2.970	1.00
161_D	186_T	2.859	1.00
310_R	314_A	2.773	1.00
129_L	158_T	2.649	1.00
155_I	173_L	2.611	1.00
243_V	312_A	2.582	1.00
181_P	194_L	2.556	1.00
288_W	293_P	2.470	1.00
170_H	174_A	2.462	1.00
94_L	121_Y	2.447	1.00
236_D	239_E	2.445	1.00
177_N	180_A	2.405	1.00
258_Y	273_F	2.404	1.00
23_H	189_D	2.321	1.00
31_Y	93_R	2.289	1.00
9_L	21_L	2.286	1.00
140_N	172_R	2.224	1.00
305_P	308_E	2.212	1.00
3_P	122_L	2.202	1.00
23_H	27_E	2.191	1.00
24_I	95_V	2.128	1.00
32_K	92_D	2.117	1.00
34_A	80_L	2.116	1.00
160_T	184_T	2.065	1.00
240_V	264_I	2.062	1.00
77_L	94_L	2.017	1.00
307_E	311_A	1.991	1.00
79_D	83_N	1.943	1.00
230_E	296_T	1.887	1.00
131_D	159_K	1.883	1.00
185_V	188_G	1.828	1.00
44_S	59_T	1.802	1.00
227_I	309_I	1.800	1.00
167_E	171_E	1.791	1.00
4_I	94_L	1.745	1.00
230_E	294_H	1.744	1.00
39_E	44_S	1.726	1.00
78_L	82_D	1.714	1.00
25_L	35_V	1.704	1.00
174_A	182_V	1.703	1.00
81_L	121_Y	1.693	1.00
10_T	128_A	1.684	1.00
15_A	129_L	1.681	1.00
10_T	126_V	1.679	1.00
44_S	47_D	1.660	1.00
237_I	241_S	1.650	1.00
7_T	124_D	1.648	1.00
236_D	265_D	1.647	1.00
24_I	192_L	1.626	1.00
154_R	181_P	1.625	1.00
169_L	173_L	1.590	1.00
20_L	129_L	1.588	1.00
241_S	245_E	1.586	1.00
135_A	149_V	1.583	1.00
103_D	147_S	1.572	1.00
191_D	194_L	1.566	1.00
234_P	263_W	1.521	1.00
125_G	154_R	1.514	1.00
255_L	299_F	1.505	1.00
135_A	169_L	1.490	1.00
20_L	188_G	1.483	1.00
227_I	310_R	1.482	1.00
22_R	26_N	1.479	1.00
258_Y	275_G	1.475	1.00
7_T	93_R	1.473	1.00
152_A	155_I	1.460	1.00
186_T	189_D	1.455	1.00
51_G	54_A	1.450	1.00
232_D	294_H	1.445	1.00
99_T	102_A	1.442	1.00
149_V	155_I	1.438	1.00
64_C	67_C	1.407	1.00
77_L	121_Y	1.403	1.00
108_I	126_V	1.385	1.00
158_T	187_H	1.379	1.00
33_I	93_R	1.375	1.00
258_Y	299_F	1.352	1.00
23_H	26_N	1.345	1.00
187_H	281_S	1.341	1.00
225_S	306_E	1.337	1.00
229_V	313_F	1.335	1.00
133_V	162_V	1.331	1.00
227_I	306_E	1.328	1.00
125_G	198_T	1.318	1.00
34_A	91_F	1.310	1.00
43_V	228_V	1.307	1.00
272_L	283_D	1.305	1.00
211_K	214_F	1.302	1.00
254_K	302_I	1.292	1.00
138_Q	141_Q	1.292	1.00
170_H	182_V	1.277	1.00
65_I	96_I	1.261	1.00
157_L	184_T	1.261	1.00
240_V	262_L	1.258	1.00
308_E	312_A	1.248	1.00
133_V	279_L	1.242	1.00
60_L	69_R	1.241	1.00
98_C	107_I	1.239	1.00
40_F	226_S	1.233	1.00
275_G	280_Y	1.229	1.00
44_S	61_T	1.226	1.00
264_I	271_L	1.214	1.00
267_E	271_L	1.210	1.00
39_E	47_D	1.206	1.00
152_A	177_N	1.205	1.00
229_V	235_V	1.200	1.00
83_N	89_I	1.199	1.00
307_E	310_R	1.190	1.00
37_E	50_I	1.186	1.00
149_V	173_L	1.175	1.00
108_I	123_L	1.168	1.00
167_E	170_H	1.136	1.00
158_T	188_G	1.129	1.00
262_L	295_S	1.115	1.00
139_M	146_Q	1.103	1.00
216_F	219_D	1.099	1.00
235_V	240_V	1.097	1.00
231_L	314_A	1.091	1.00
160_T	186_T	1.088	1.00
81_L	120_R	1.087	1.00
137_E	141_Q	1.087	1.00
301_G	304_L	1.086	1.00
212_P	215_H	1.083	1.00
271_L	284_W	1.069	1.00
73_L	96_I	1.064	1.00
165_E	184_T	1.060	1.00
223_D	303_Q	1.053	1.00
179_R	205_E	1.039	1.00
128_A	152_A	1.038	1.00
23_H	188_G	1.033	1.00
8_L	111_F	1.031	1.00
71_N	75_D	1.030	1.00
202_M	205_E	1.028	1.00
172_R	175_R	1.027	1.00
116_V	119_Q	1.027	1.00
130_V	135_A	1.020	1.00
237_I	264_I	1.018	1.00
154_R	183_Y	1.014	1.00
163_A	169_L	1.010	1.00
75_D	79_D	1.006	1.00
49_L	272_L	1.000	1.00
171_E	175_R	0.999	1.00
156_L	190_I	0.991	1.00
24_I	195_L	0.990	1.00
261_M	272_L	0.988	1.00
240_V	280_Y	0.977	1.00
246_N	312_A	0.975	1.00
68_S	99_T	0.975	1.00
263_W	293_P	0.973	1.00
55_T	58_K	0.970	1.00
211_K	215_H	0.970	1.00
311_A	314_A	0.967	1.00
238_S	242_R	0.958	1.00
206_N	209_S	0.956	1.00
129_L	188_G	0.956	1.00
65_I	73_L	0.954	1.00
36_I	94_L	0.938	0.99
218_A	221_Q	0.932	0.99
288_W	291_E	0.931	0.99
308_E	311_A	0.930	0.99
212_P	216_F	0.928	0.99
72_E	75_D	0.927	0.99
6_V	94_L	0.926	0.99
206_N	210_T	0.922	0.99
36_I	76_A	0.921	0.99
264_I	267_E	0.917	0.99
40_F	101_M	0.912	0.99
263_W	288_W	0.910	0.99
254_K	303_Q	0.905	0.99
31_Y	193_G	0.902	0.99
37_E	44_S	0.891	0.99
78_L	120_R	0.891	0.99
167_E	184_T	0.890	0.99
272_L	285_D	0.889	0.99
7_T	127_I	0.886	0.99
133_V	163_A	0.881	0.99
124_D	199_N	0.876	0.99
124_D	200_G	0.875	0.99
136_D	168_K	0.870	0.99
48_Q	296_T	0.863	0.99
242_R	246_N	0.858	0.99
156_L	183_Y	0.857	0.99
22_R	50_I	0.855	0.99
6_V	96_I	0.851	0.99
98_C	102_A	0.850	0.99
37_E	46_D	0.848	0.99
55_T	72_E	0.846	0.99
76_A	79_D	0.846	0.99
126_V	153_D	0.843	0.99
214_F	217_I	0.843	0.99
169_L	172_R	0.841	0.99
21_L	95_V	0.839	0.99
81_L	94_L	0.839	0.99
231_L	310_R	0.834	0.99
183_Y	190_I	0.833	0.99
130_V	155_I	0.828	0.99
39_E	102_A	0.825	0.99
40_F	102_A	0.822	0.99
135_A	145_A	0.821	0.98
124_D	196_F	0.820	0.98
56_Q	83_N	0.819	0.98
39_E	99_T	0.817	0.98
20_L	156_L	0.815	0.98
6_V	111_F	0.815	0.98
22_R	41_G	0.814	0.98
4_I	81_L	0.814	0.98
240_V	244_M	0.812	0.98
31_Y	92_D	0.810	0.98
155_I	180_A	0.806	0.98
136_D	172_R	0.803	0.98
158_T	186_T	0.802	0.98
27_E	192_L	0.789	0.98
168_K	171_E	0.787	0.98
161_D	187_H	0.786	0.98
7_T	125_G	0.785	0.98
237_I	266_G	0.784	0.98
8_L	126_V	0.779	0.98
236_D	266_G	0.779	0.98
80_L	91_F	0.778	0.98
255_L	258_Y	0.778	0.98
215_H	218_A	0.777	0.98
46_D	50_I	0.775	0.98
204_E	208_V	0.775	0.98
49_L	261_M	0.775	0.98
227_I	299_F	0.774	0.98
223_D	226_S	0.770	0.98
62_N	111_F	0.770	0.98
155_I	182_V	0.769	0.98
161_D	188_G	0.768	0.98
43_V	46_D	0.768	0.98
196_F	199_N	0.767	0.98
286_R	291_E	0.763	0.98
183_Y	194_L	0.760	0.98
267_E	284_W	0.760	0.98
83_N	91_F	0.759	0.97
12_F	256_L	0.758	0.97
260_G	297_M	0.758	0.97
232_D	292_K	0.756	0.97
207_V	210_T	0.755	0.97
25_L	33_I	0.753	0.97
128_A	148_Q	0.751	0.97
26_N	29_H	0.749	0.97
62_N	66_C	0.746	0.97
286_R	289_G	0.745	0.97
124_D	197_N	0.744	0.97
58_K	76_A	0.742	0.97
289_G	292_K	0.741	0.97
262_L	273_F	0.740	0.97
22_R	49_L	0.738	0.97
78_L	81_L	0.737	0.97
157_L	182_V	0.734	0.97
144_I	147_S	0.726	0.97
185_V	190_I	0.721	0.97
117_L	121_Y	0.719	0.97
128_A	155_I	0.717	0.96
299_F	313_F	0.715	0.96
157_L	160_T	0.715	0.96
102_A	107_I	0.713	0.96
97_E	100_G	0.709	0.96
135_A	139_M	0.707	0.96
60_L	76_A	0.706	0.96
77_L	111_F	0.704	0.96
252_A	255_L	0.704	0.96
105_G	109_Q	0.703	0.96
160_T	163_A	0.702	0.96
31_Y	197_N	0.701	0.96
263_W	270_R	0.701	0.96
304_L	309_I	0.699	0.96
24_I	33_I	0.698	0.96
91_F	94_L	0.695	0.96
270_R	285_D	0.692	0.96
78_L	116_V	0.690	0.96
192_L	195_L	0.688	0.96
28_Q	31_Y	0.686	0.95
13_L	16_G	0.680	0.95
12_F	148_Q	0.675	0.95
290_D	293_P	0.675	0.95
203_L	207_V	0.674	0.95
37_E	45_V	0.674	0.95
38_N	41_G	0.671	0.95
131_D	134_H	0.664	0.95
273_F	297_M	0.664	0.95
63_G	67_C	0.662	0.95
159_K	162_V	0.661	0.94
203_L	209_S	0.661	0.94
204_E	207_V	0.655	0.94
257_R	260_G	0.654	0.94
205_E	208_V	0.651	0.94
33_I	95_V	0.651	0.94
215_H	219_D	0.651	0.94
44_S	118_C	0.651	0.94
45_V	48_Q	0.650	0.94
273_F	282_A	0.648	0.94
281_S	284_W	0.647	0.94
228_V	231_L	0.647	0.94
14_G	17_K	0.647	0.94
130_V	169_L	0.646	0.94
157_L	170_H	0.645	0.94
47_D	59_T	0.645	0.94
39_E	59_T	0.645	0.94
93_R	124_D	0.644	0.94
195_L	199_N	0.642	0.94
11_G	17_K	0.641	0.94
64_C	68_S	0.639	0.93
132_A	169_L	0.637	0.93
29_H	33_I	0.636	0.93
20_L	185_V	0.634	0.93
105_G	147_S	0.630	0.93
63_G	104_P	0.630	0.93
231_L	235_V	0.629	0.93
139_M	172_R	0.628	0.93
23_H	192_L	0.628	0.93
136_D	169_L	0.627	0.93
13_L	38_N	0.627	0.93
167_E	174_A	0.627	0.93
143_T	146_Q	0.627	0.93
46_D	57_I	0.624	0.93
157_L	169_L	0.623	0.93
11_G	14_G	0.623	0.93
134_H	277_Q	0.623	0.93
130_V	149_V	0.622	0.93
239_E	243_V	0.619	0.92
37_E	47_D	0.618	0.92
72_E	110_T	0.618	0.92
122_L	197_N	0.615	0.92
231_L	313_F	0.615	0.92
13_L	17_K	0.611	0.92
5_A	122_L	0.611	0.92
231_L	295_S	0.611	0.92
74_E	113_S	0.611	0.92
83_N	90_Q	0.609	0.92
144_I	222_N	0.609	0.92
23_H	190_I	0.609	0.92
63_G	66_C	0.606	0.92
100_G	259_K	0.604	0.91
10_T	98_C	0.603	0.91
265_D	268_P	0.601	0.91
181_P	200_G	0.601	0.91
269_N	284_W	0.600	0.91
205_E	209_S	0.599	0.91
98_C	153_D	0.598	0.91
5_A	124_D	0.597	0.91
211_K	217_I	0.596	0.91
10_T	125_G	0.595	0.91
122_L	199_N	0.594	0.91
23_H	187_H	0.592	0.91
7_T	153_D	0.590	0.90
194_L	197_N	0.589	0.90
238_S	241_S	0.587	0.90
45_V	261_M	0.587	0.90
8_L	123_L	0.586	0.90
211_K	216_F	0.585	0.90
3_P	119_Q	0.585	0.90
255_L	304_L	0.582	0.90
34_A	89_I	0.581	0.90
150_G	275_G	0.578	0.90
245_E	280_Y	0.577	0.89
154_R	194_L	0.576	0.89
154_R	195_L	0.575	0.89
270_R	293_P	0.574	0.89
60_L	70_S	0.573	0.89
203_L	206_N	0.571	0.89
165_E	170_H	0.571	0.89
79_D	189_D	0.568	0.89
243_V	281_S	0.567	0.89
127_I	154_R	0.566	0.89
109_Q	112_F	0.566	0.89
105_G	112_F	0.565	0.88
213_R	216_F	0.565	0.88
273_F	280_Y	0.565	0.88
288_W	295_S	0.563	0.88
237_I	267_E	0.563	0.88
173_L	184_T	0.563	0.88
60_L	64_C	0.561	0.88
35_V	38_N	0.560	0.88
23_H	185_V	0.558	0.88
133_V	137_E	0.556	0.88
39_E	103_D	0.556	0.88
123_L	126_V	0.555	0.88
4_I	121_Y	0.551	0.87
13_L	18_T	0.550	0.87
106_P	110_T	0.548	0.87
45_V	296_T	0.548	0.87
213_R	217_I	0.547	0.87
109_Q	113_S	0.546	0.87
192_L	196_F	0.546	0.87
16_G	19_T	0.544	0.87
8_L	98_C	0.543	0.86
140_N	168_K	0.542	0.86
244_M	258_Y	0.539	0.86
260_G	273_F	0.539	0.86
153_D	200_G	0.538	0.86
232_D	263_W	0.537	0.86
14_G	18_T	0.535	0.86
171_E	174_A	0.534	0.86
232_D	235_V	0.532	0.85
156_L	186_T	0.532	0.85
38_N	66_C	0.532	0.85
81_L	117_L	0.529	0.85
11_G	16_G	0.529	0.85
33_I	92_D	0.529	0.85
155_I	247_L	0.528	0.85
82_D	116_V	0.527	0.85
150_G	176_I	0.526	0.85
238_S	246_N	0.526	0.85
40_F	99_T	0.526	0.85
9_L	177_N	0.525	0.85
101_M	224_I	0.525	0.85
197_N	202_M	0.525	0.85
127_I	156_L	0.525	0.85
106_P	109_Q	0.522	0.84
29_H	193_G	0.521	0.84
190_I	195_L	0.521	0.84
199_N	202_M	0.520	0.84
156_L	184_T	0.520	0.84
299_F	304_L	0.519	0.84
143_T	147_S	0.519	0.84
202_M	210_T	0.519	0.84
134_H	138_Q	0.519	0.84
233_Y	295_S	0.517	0.84
60_L	67_C	0.517	0.84
215_H	220_K	0.516	0.84
13_L	100_G	0.516	0.84
168_K	175_R	0.515	0.83
263_W	295_S	0.513	0.83
71_N	111_F	0.512	0.83
142_F	158_T	0.511	0.83
146_Q	176_I	0.511	0.83
18_T	49_L	0.511	0.83
235_V	239_E	0.511	0.83
271_L	282_A	0.510	0.83
58_K	62_N	0.510	0.83
47_D	50_I	0.508	0.83
28_Q	95_V	0.507	0.82
200_G	203_L	0.507	0.82
138_Q	145_A	0.506	0.82
282_A	285_D	0.505	0.82
242_R	245_E	0.505	0.82
233_Y	263_W	0.505	0.82
65_I	68_S	0.504	0.82
106_P	126_V	0.503	0.82
275_G	278_R	0.502	0.82
81_L	116_V	0.502	0.82
219_D	222_N	0.501	0.82
70_S	280_Y	0.501	0.82
7_T	195_L	0.500	0.82

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
1nijA	1	0.9969	100	0.312	Contact Map
4ehxA	1	0.783	99.9	0.704	Contact Map
2wsmA	2	0.566	99.9	0.729	Contact Map
2hf9A	2	0.5818	99.9	0.737	Contact Map
4lpsA	1	0.6101	99.8	0.758	Contact Map
1xjcA	2	0.4465	99.8	0.759	Contact Map
4hi0E	2	0.5723	99.8	0.76	Contact Map
1yrbA	2	0.7296	99.8	0.766	Contact Map
4xc8A	2	0.8459	99.7	0.785	Contact Map
2qm8A	2	0.7956	99.7	0.798	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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