YFJQ - ECOLI - GREMLIN Contacts

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YFJQ - UPF0380 protein YfjQ

UniProt:	P52132	Sequences: MTRLASRFGAANLIRRDRPLTREELFRVVPSVFSEDKHESRSERYTYIPTISLLDSLQREGFQPFFACQTRVRDPRRREHTKHMLRLRREGQITGKQVPEIILLNSHDGTSSYQMLPGMFRAVCQNGLVCGESFGEVRVPHKGDVVSQVIEGAYEVLGIFERVEEKRDAMQSLLLPPPVQQALAKAALTYRFGEDHQPVTESQILSPRRWQDESNDLWTTYQRIQENLIKGGLSGRNAKGGRTHTRAVRGIDGDVKLNRALWVMAETLLTQLQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13203
Length:	273 (264)
Sequences:	237 (124)
Seq/√Len:	7.6

ECOLI - YFJQ YAFZ

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
144_D	147_S	5.124	0.99
183_L	224_I	3.818	0.96
22_R	55_D	3.791	0.96
22_R	58_Q	3.454	0.93
184_A	205_L	3.260	0.90
45_Y	107_H	3.004	0.86
182_A	263_V	2.915	0.84
79_E	85_L	2.826	0.82
14_I	67_A	2.656	0.78
45_Y	106_S	2.445	0.72
77_R	108_D	2.439	0.72
191_R	247_A	2.348	0.69
22_R	26_F	2.298	0.67
185_K	201_E	2.276	0.66
55_D	59_R	2.153	0.62
48_I	112_S	2.082	0.59
114_Q	131_G	2.071	0.58
56_S	77_R	2.064	0.58
32_V	253_G	2.022	0.56
82_K	252_D	2.009	0.56
137_V	207_P	1.985	0.55
183_L	247_A	1.949	0.54
182_A	268_L	1.942	0.53
97_Q	171_Q	1.935	0.53
171_Q	179_V	1.933	0.53
228_L	242_R	1.906	0.52
54_L	87_L	1.897	0.52
180_Q	223_R	1.881	0.51
191_R	248_V	1.847	0.49
236_R	240_G	1.798	0.48
162_R	199_V	1.792	0.47
16_R	197_Q	1.792	0.47
122_A	131_G	1.764	0.46
257_L	260_A	1.711	0.44
135_G	139_V	1.701	0.44
183_L	264_M	1.695	0.43
156_V	230_K	1.648	0.42
191_R	194_E	1.643	0.41
29_V	117_P	1.639	0.41
38_H	41_R	1.637	0.41
62_F	149_V	1.630	0.41
53_L	110_T	1.630	0.41
84_M	122_A	1.590	0.39
48_I	216_D	1.585	0.39
8_F	131_G	1.560	0.38
211_Q	223_R	1.552	0.38
214_S	244_H	1.544	0.38
25_L	89_R	1.540	0.37
19_P	92_Q	1.491	0.36
110_T	244_H	1.488	0.36
204_I	241_G	1.482	0.35
139_V	230_K	1.477	0.35
29_V	134_F	1.465	0.35
172_S	206_S	1.454	0.34
204_I	207_P	1.439	0.34
84_M	91_G	1.416	0.33
35_E	204_I	1.408	0.33
53_L	190_Y	1.406	0.33
24_E	32_V	1.404	0.33
98_V	254_D	1.386	0.32
70_T	184_A	1.379	0.32
48_I	161_E	1.342	0.30
170_M	265_A	1.341	0.30
128_L	154_Y	1.339	0.30
56_S	59_R	1.338	0.30
220_T	224_I	1.338	0.30
106_S	138_R	1.332	0.30
97_Q	179_V	1.318	0.30
142_K	148_Q	1.313	0.29
14_I	25_L	1.311	0.29
188_L	192_F	1.310	0.29
28_V	72_V	1.299	0.29
185_K	267_T	1.298	0.29
25_L	67_A	1.297	0.29
128_L	255_V	1.297	0.29
6_S	9_G	1.289	0.29
86_R	100_E	1.277	0.28
6_S	207_P	1.272	0.28
47_Y	140_P	1.271	0.28
81_T	150_I	1.262	0.28
156_V	248_V	1.256	0.28
161_E	165_E	1.245	0.27
18_R	24_E	1.242	0.27
74_D	85_L	1.241	0.27
98_V	122_A	1.240	0.27
101_I	133_S	1.236	0.27
123_V	224_I	1.234	0.27
32_V	85_L	1.232	0.27
47_Y	107_H	1.229	0.27
134_F	148_Q	1.221	0.26
65_F	112_S	1.217	0.26
59_R	249_R	1.214	0.26
150_I	154_Y	1.214	0.26
7_R	207_P	1.211	0.26
115_M	153_A	1.201	0.26
114_Q	138_R	1.190	0.25
16_R	25_L	1.187	0.25
227_N	230_K	1.182	0.25
103_L	113_Y	1.176	0.25
160_F	188_L	1.168	0.25
82_K	149_V	1.167	0.25
46_T	142_K	1.165	0.25
34_S	37_K	1.153	0.24
215_N	219_T	1.146	0.24
70_T	259_R	1.142	0.24
245_T	264_M	1.141	0.24
183_L	265_A	1.133	0.24
19_P	89_R	1.127	0.24
191_R	195_D	1.126	0.24
94_T	194_E	1.108	0.23
70_T	205_L	1.100	0.23
119_M	191_R	1.100	0.23
34_S	132_E	1.087	0.22
163_V	248_V	1.087	0.22
101_I	120_F	1.086	0.22
114_Q	122_A	1.081	0.22
80_H	249_R	1.074	0.22
143_G	149_V	1.073	0.22
8_F	255_V	1.063	0.22
12_N	254_D	1.058	0.22
32_V	197_Q	1.053	0.22
228_L	247_A	1.053	0.22
156_V	252_D	1.049	0.21
216_D	219_T	1.045	0.21
103_L	127_G	1.038	0.21
80_H	167_R	1.035	0.21
8_F	114_Q	1.034	0.21
70_T	80_H	1.033	0.21
65_F	131_G	1.033	0.21
87_L	122_A	1.032	0.21
77_R	204_I	1.030	0.21
9_G	195_D	1.029	0.21
8_F	122_A	1.023	0.21
140_P	148_Q	1.022	0.21
139_V	183_L	1.018	0.21
145_V	205_L	1.014	0.21
89_R	157_L	1.006	0.20
87_L	250_G	1.003	0.20
128_L	242_R	1.002	0.20
36_D	80_H	0.996	0.20
158_G	162_R	0.994	0.20
54_L	81_T	0.992	0.20
41_R	109_G	0.986	0.20
51_I	235_G	0.983	0.20
37_K	222_Q	0.979	0.20
182_A	247_A	0.979	0.20
196_H	234_S	0.977	0.20
152_G	198_P	0.971	0.19
53_L	89_R	0.960	0.19
132_E	259_R	0.945	0.19
87_L	157_L	0.944	0.19
24_E	148_Q	0.939	0.19
65_F	115_M	0.938	0.19
41_R	62_F	0.934	0.18
202_S	205_L	0.932	0.18
84_M	174_L	0.931	0.18
170_M	269_L	0.930	0.18
31_S	251_I	0.927	0.18
72_V	77_R	0.927	0.18
81_T	248_V	0.926	0.18
135_G	230_K	0.925	0.18
117_P	135_G	0.918	0.18
101_I	157_L	0.917	0.18
178_P	224_I	0.917	0.18
7_R	194_E	0.915	0.18
63_Q	172_S	0.914	0.18
21_T	165_E	0.911	0.18
233_L	245_T	0.910	0.18
22_R	36_D	0.909	0.18
9_G	85_L	0.908	0.18
180_Q	220_T	0.904	0.18
238_A	247_A	0.901	0.18
84_M	123_V	0.899	0.18
8_F	68_C	0.898	0.18
185_K	189_T	0.891	0.17
32_V	89_R	0.889	0.17
82_K	143_G	0.889	0.17
95_G	133_S	0.888	0.17
215_N	248_V	0.880	0.17
182_A	267_T	0.880	0.17
66_F	89_R	0.880	0.17
165_E	172_S	0.874	0.17
226_E	231_G	0.873	0.17
183_L	234_S	0.870	0.17
210_W	213_E	0.868	0.17
109_G	117_P	0.863	0.17
100_E	113_Y	0.860	0.17
26_F	33_F	0.859	0.17
18_R	21_T	0.842	0.16
21_T	254_D	0.841	0.16
58_Q	97_Q	0.841	0.16
47_Y	192_F	0.840	0.16
41_R	47_Y	0.839	0.16
53_L	264_M	0.837	0.16
198_P	236_R	0.837	0.16
51_I	158_G	0.835	0.16
250_G	253_G	0.835	0.16
10_A	13_L	0.829	0.16
35_E	265_A	0.827	0.16
84_M	161_E	0.825	0.16
52_S	55_D	0.823	0.16
67_A	190_Y	0.821	0.16
171_Q	201_E	0.820	0.16
26_F	36_D	0.816	0.16
25_L	90_E	0.813	0.16
29_V	66_F	0.812	0.16
21_T	24_E	0.809	0.16
109_G	113_Y	0.809	0.16
56_S	155_E	0.805	0.16
116_L	125_Q	0.803	0.16
58_Q	192_F	0.803	0.16
48_I	149_V	0.802	0.16
145_V	193_G	0.798	0.15
117_P	190_Y	0.798	0.15
85_L	137_V	0.795	0.15
36_D	238_A	0.794	0.15
76_R	85_L	0.793	0.15
138_R	142_K	0.791	0.15
25_L	253_G	0.787	0.15
129_V	205_L	0.785	0.15
37_K	46_T	0.785	0.15
72_V	201_E	0.785	0.15
173_L	193_G	0.783	0.15
47_Y	160_F	0.782	0.15
155_E	190_Y	0.782	0.15
159_I	162_R	0.782	0.15
58_Q	193_G	0.781	0.15
9_G	202_S	0.780	0.15
11_A	229_I	0.779	0.15
115_M	122_A	0.778	0.15
179_V	182_A	0.777	0.15
67_A	191_R	0.777	0.15
212_D	218_W	0.776	0.15
180_Q	215_N	0.773	0.15
9_G	12_N	0.773	0.15
6_S	173_L	0.770	0.15
24_E	129_V	0.770	0.15
107_H	127_G	0.770	0.15
46_T	137_V	0.770	0.15
72_V	130_C	0.769	0.15
105_N	124_C	0.765	0.15
105_N	126_N	0.765	0.15
99_P	110_T	0.761	0.15
14_I	199_V	0.761	0.15
59_R	85_L	0.759	0.15
204_I	228_L	0.756	0.15
221_Y	265_A	0.754	0.15
90_E	222_Q	0.749	0.14
87_L	101_I	0.747	0.14
182_A	191_R	0.747	0.14
145_V	152_G	0.747	0.14
173_L	182_A	0.746	0.14
184_A	268_L	0.743	0.14
214_S	230_K	0.737	0.14
26_F	168_D	0.737	0.14
67_A	136_E	0.736	0.14
202_S	213_E	0.732	0.14
205_L	256_K	0.728	0.14
190_Y	254_D	0.725	0.14
57_L	86_R	0.725	0.14
163_V	266_E	0.721	0.14
9_G	14_I	0.720	0.14
208_R	227_N	0.714	0.14
154_Y	242_R	0.710	0.14
112_S	170_M	0.709	0.14
202_S	239_K	0.709	0.14
65_F	68_C	0.706	0.14
213_E	244_H	0.701	0.14
220_T	267_T	0.700	0.13
37_K	47_Y	0.697	0.13
18_R	148_Q	0.695	0.13
176_P	179_V	0.695	0.13
91_G	256_K	0.693	0.13
64_P	100_E	0.692	0.13
71_R	216_D	0.691	0.13
25_L	29_V	0.690	0.13
49_P	69_Q	0.690	0.13
107_H	112_S	0.689	0.13
145_V	151_E	0.687	0.13
45_Y	138_R	0.683	0.13
93_I	233_L	0.681	0.13
167_R	268_L	0.679	0.13
12_N	241_G	0.675	0.13
125_Q	184_A	0.673	0.13
37_K	110_T	0.669	0.13
172_S	177_P	0.662	0.13
92_Q	223_R	0.660	0.13
16_R	67_A	0.656	0.13
258_N	261_L	0.655	0.13
70_T	74_D	0.651	0.13
12_N	159_I	0.650	0.13
26_F	77_R	0.646	0.13
114_Q	120_F	0.644	0.12
68_C	131_G	0.643	0.12
80_H	110_T	0.632	0.12
192_F	198_P	0.630	0.12
27_R	202_S	0.630	0.12
248_V	257_L	0.628	0.12
7_R	76_R	0.626	0.12
243_T	268_L	0.624	0.12
173_L	263_V	0.624	0.12
28_V	71_R	0.623	0.12
37_K	253_G	0.623	0.12
43_E	177_P	0.622	0.12
29_V	230_K	0.621	0.12
67_A	119_M	0.620	0.12
158_G	199_V	0.619	0.12
7_R	96_K	0.617	0.12
125_Q	133_S	0.615	0.12
57_L	69_Q	0.608	0.12
55_D	194_E	0.608	0.12
10_A	166_K	0.606	0.12
32_V	129_V	0.605	0.12
128_L	138_R	0.605	0.12
7_R	140_P	0.599	0.12
81_T	260_A	0.596	0.12
62_F	157_L	0.596	0.12
77_R	81_T	0.596	0.12
104_L	129_V	0.595	0.12
88_R	111_S	0.594	0.12
23_E	257_L	0.592	0.12
105_N	231_G	0.591	0.12
124_C	231_G	0.591	0.12
126_N	231_G	0.591	0.12
53_L	253_G	0.590	0.12
157_L	218_W	0.588	0.12
234_S	244_H	0.587	0.12
29_V	33_F	0.586	0.12
44_R	108_D	0.586	0.12
8_F	102_I	0.585	0.11
16_R	117_P	0.585	0.11
33_F	137_V	0.585	0.11
113_Y	145_V	0.584	0.11
144_D	154_Y	0.584	0.11
20_L	24_E	0.583	0.11
224_I	264_M	0.582	0.11
101_I	149_V	0.582	0.11
60_E	152_G	0.580	0.11
162_R	206_S	0.578	0.11
36_D	195_D	0.576	0.11
34_S	117_P	0.575	0.11
12_N	247_A	0.574	0.11
128_L	180_Q	0.574	0.11
63_Q	90_E	0.572	0.11
47_Y	115_M	0.568	0.11
36_D	77_R	0.564	0.11
13_L	55_D	0.564	0.11
203_Q	233_L	0.564	0.11
37_K	224_I	0.563	0.11
48_I	62_F	0.563	0.11
214_S	243_T	0.563	0.11
9_G	222_Q	0.558	0.11
65_F	160_F	0.557	0.11
62_F	143_G	0.555	0.11
181_Q	195_D	0.555	0.11
48_I	136_E	0.555	0.11
87_L	198_P	0.553	0.11
70_T	145_V	0.553	0.11
60_E	69_Q	0.552	0.11
9_G	247_A	0.546	0.11
237_N	240_G	0.544	0.11
112_S	164_E	0.543	0.11
227_N	266_E	0.539	0.11
131_G	170_M	0.537	0.11
146_V	199_V	0.536	0.11
63_Q	196_H	0.533	0.11
69_Q	227_N	0.532	0.11
34_S	140_P	0.532	0.11
21_T	154_Y	0.532	0.11
163_V	171_Q	0.531	0.11
70_T	167_R	0.531	0.11
97_Q	119_M	0.531	0.11
179_V	197_Q	0.529	0.11
89_R	136_E	0.528	0.11
160_F	170_M	0.526	0.11
26_F	55_D	0.525	0.11
222_Q	247_A	0.525	0.11
100_E	127_G	0.524	0.11
40_S	62_F	0.522	0.10
62_F	150_I	0.521	0.10
162_R	165_E	0.520	0.10
29_V	159_I	0.519	0.10
23_E	193_G	0.517	0.10
147_S	150_I	0.515	0.10
91_G	243_T	0.515	0.10
77_R	176_P	0.515	0.10
91_G	163_V	0.512	0.10
7_R	247_A	0.509	0.10
32_V	174_L	0.508	0.10
106_S	223_R	0.508	0.10
12_N	16_R	0.507	0.10
57_L	246_R	0.503	0.10
72_V	78_R	0.503	0.10
219_T	249_R	0.501	0.10
68_C	93_I	0.500	0.10
65_F	122_A	0.500	0.10

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
3pdiA	1	0.5348	30.4	0.974	Contact Map
3aekA	1	0.5495	22.6	0.976	Contact Map
3u7qA	1	0.5714	22	0.976	Contact Map
3sgiA	1	0	19.1	0.977	Contact Map
2fhoA	1	0.1612	15.4	0.978	Contact Map
3slrA	2	0.6081	15.3	0.978	Contact Map
4wesB	2	0.6007	13.3	0.978	Contact Map
3u7qB	2	0.6117	10.5	0.979	Contact Map
4a0eA	1	0.3663	9.2	0.98	Contact Map
1uokA	1	0.6227	8.8	0.98	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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