YJFK - ECOLI - GREMLIN Contacts

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YJFK - Uncharacterized protein YjfK

UniProt:	P39293	Sequences: MSGFFQRLFGKDNKPAIARGPLGLHLNSGFTLDTLAFRLLEDELLIALPGEEFTVAAVSHIDLGGGSQIFRYYTSGDEFLQINTTGGEDIDDIDDIKLFVYEESYGISKESHWREAINAKAMGAMTLNWQEKRWQRFFNSEEPGNIEPVYMLEKVENQNHAKWEVHNFTMGYQRQVTEDTYEYLLLNGEESFNDLGEPEWLFSRALGVDIPLTSLHIIG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12486
Length:	219 (205)
Sequences:	121 (91)
Seq/√Len:	6.3

ECOLI - YJFK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
110_E	114_R	4.240	0.96
134_W	138_F	2.529	0.67
61_I	93_I	2.472	0.65
4_F	9_F	2.458	0.64
123_G	136_R	2.419	0.63
6_Q	12_D	2.406	0.63
21_P	49_P	2.371	0.61
155_V	165_V	2.338	0.60
73_Y	170_M	2.306	0.59
107_I	116_A	2.270	0.58
34_T	51_E	2.270	0.58
99_F	134_W	2.214	0.56
23_G	189_E	2.181	0.55
116_A	202_F	2.120	0.52
35_L	104_S	2.113	0.52
79_F	205_A	2.113	0.52
60_H	70_F	2.093	0.51
68_Q	215_L	2.069	0.51
27_N	138_F	2.052	0.50
80_L	198_P	1.978	0.47
26_L	57_A	1.969	0.47
35_L	74_T	1.950	0.46
183_Y	209_D	1.892	0.44
127_L	136_R	1.891	0.44
35_L	149_V	1.881	0.44
104_S	201_L	1.860	0.43
55_V	59_S	1.829	0.42
61_I	82_I	1.799	0.41
174_R	184_L	1.722	0.38
24_L	63_L	1.699	0.37
64_G	155_V	1.679	0.37
7_R	92_D	1.601	0.34
11_K	93_I	1.593	0.34
6_Q	10_G	1.586	0.34
61_I	151_M	1.571	0.33
22_L	29_G	1.553	0.33
15_P	80_L	1.549	0.32
172_Y	214_S	1.537	0.32
82_I	131_E	1.528	0.32
107_I	158_Q	1.522	0.32
58_V	172_Y	1.520	0.31
6_Q	13_N	1.518	0.31
136_R	140_S	1.494	0.31
27_N	82_I	1.482	0.30
146_I	214_S	1.457	0.30
97_K	183_Y	1.437	0.29
25_H	106_G	1.428	0.29
38_R	69_I	1.400	0.28
53_F	69_I	1.399	0.28
90_I	146_I	1.397	0.28
136_R	207_G	1.387	0.27
107_I	126_T	1.358	0.27
45_L	130_Q	1.355	0.27
12_D	17_I	1.352	0.26
9_F	12_D	1.338	0.26
13_N	133_R	1.334	0.26
69_I	210_I	1.312	0.25
183_Y	210_I	1.309	0.25
44_L	185_L	1.282	0.24
92_D	191_S	1.270	0.24
62_D	212_L	1.267	0.24
66_G	177_T	1.256	0.24
10_G	157_N	1.244	0.23
72_Y	83_N	1.240	0.23
72_Y	76_G	1.235	0.23
32_L	62_D	1.232	0.23
65_G	197_E	1.223	0.23
55_V	104_S	1.223	0.23
109_K	125_M	1.215	0.23
71_R	170_M	1.210	0.23
101_Y	203_S	1.209	0.23
86_G	107_I	1.197	0.22
14_K	154_K	1.189	0.22
151_M	169_T	1.186	0.22
68_Q	213_T	1.186	0.22
21_P	38_R	1.177	0.22
79_F	209_D	1.175	0.22
138_F	171_G	1.169	0.22
24_L	98_L	1.168	0.22
91_D	215_L	1.165	0.21
28_S	37_F	1.163	0.21
163_W	167_N	1.162	0.21
157_N	167_N	1.151	0.21
14_K	85_T	1.142	0.21
123_G	199_E	1.124	0.20
74_T	166_H	1.123	0.20
131_E	135_Q	1.115	0.20
32_L	57_A	1.112	0.20
77_D	206_L	1.108	0.20
37_F	99_F	1.107	0.20
29_G	80_L	1.095	0.20
139_N	172_Y	1.093	0.20
69_I	115_E	1.090	0.20
53_F	205_A	1.086	0.20
5_F	67_S	1.079	0.19
68_Q	84_T	1.069	0.19
10_G	13_N	1.061	0.19
113_W	117_I	1.061	0.19
123_G	215_L	1.051	0.19
91_D	156_E	1.043	0.19
25_H	165_V	1.041	0.19
8_L	11_K	1.032	0.18
55_V	149_V	1.023	0.18
91_D	172_Y	1.017	0.18
114_R	179_D	1.016	0.18
8_L	34_T	1.012	0.18
66_G	161_A	1.012	0.18
72_Y	122_M	0.998	0.18
80_L	184_L	0.997	0.18
64_G	212_L	0.996	0.18
20_G	72_Y	0.994	0.18
73_Y	149_V	0.984	0.17
50_G	206_L	0.983	0.17
21_P	123_G	0.983	0.17
59_S	127_L	0.976	0.17
39_L	122_M	0.963	0.17
148_P	188_G	0.958	0.17
142_E	186_L	0.956	0.17
106_G	127_L	0.954	0.17
71_R	153_E	0.952	0.17
81_Q	153_E	0.951	0.17
137_F	173_Q	0.949	0.17
17_I	43_E	0.945	0.17
111_S	178_E	0.945	0.17
76_G	210_I	0.943	0.17
4_F	8_L	0.939	0.16
171_G	176_V	0.935	0.16
76_G	189_E	0.933	0.16
60_H	68_Q	0.933	0.16
74_T	167_N	0.930	0.16
116_A	158_Q	0.929	0.16
90_I	93_I	0.929	0.16
95_D	137_F	0.921	0.16
7_R	32_L	0.918	0.16
110_E	126_T	0.917	0.16
18_A	82_I	0.913	0.16
68_Q	91_D	0.910	0.16
45_L	128_N	0.908	0.16
12_D	179_D	0.902	0.16
153_E	182_E	0.898	0.16
84_T	213_T	0.889	0.15
89_D	110_E	0.887	0.15
15_P	178_E	0.885	0.15
67_S	72_Y	0.881	0.15
148_P	170_M	0.876	0.15
97_K	173_Q	0.873	0.15
6_Q	108_S	0.873	0.15
13_N	111_S	0.872	0.15
116_A	145_N	0.871	0.15
92_D	215_L	0.870	0.15
187_N	204_R	0.869	0.15
99_F	123_G	0.868	0.15
97_K	146_I	0.857	0.15
4_F	11_K	0.856	0.15
5_F	109_K	0.855	0.15
33_D	76_G	0.845	0.15
23_G	80_L	0.843	0.15
47_A	126_T	0.843	0.15
135_Q	210_I	0.840	0.15
86_G	152_L	0.824	0.14
45_L	132_K	0.822	0.14
135_Q	203_S	0.820	0.14
152_L	166_H	0.817	0.14
24_L	86_G	0.811	0.14
87_G	99_F	0.808	0.14
31_T	206_L	0.805	0.14
187_N	210_I	0.805	0.14
65_G	112_H	0.803	0.14
26_L	173_Q	0.801	0.14
99_F	112_H	0.800	0.14
80_L	202_F	0.800	0.14
59_S	75_S	0.797	0.14
6_Q	61_I	0.795	0.14
22_L	95_D	0.795	0.14
175_Q	215_L	0.794	0.14
139_N	146_I	0.792	0.14
52_E	167_N	0.790	0.14
185_L	207_G	0.789	0.14
199_E	213_T	0.789	0.14
72_Y	170_M	0.786	0.14
93_I	199_E	0.785	0.14
19_R	166_H	0.781	0.14
39_L	113_W	0.780	0.13
75_S	210_I	0.777	0.13
10_G	111_S	0.774	0.13
74_T	168_F	0.772	0.13
182_E	185_L	0.772	0.13
28_S	172_Y	0.768	0.13
192_F	198_P	0.768	0.13
43_E	72_Y	0.765	0.13
104_S	203_S	0.764	0.13
74_T	151_M	0.763	0.13
4_F	176_V	0.763	0.13
14_K	130_Q	0.752	0.13
112_H	197_E	0.750	0.13
106_G	214_S	0.746	0.13
113_W	200_W	0.741	0.13
4_F	69_I	0.740	0.13
92_D	123_G	0.736	0.13
19_R	75_S	0.734	0.13
30_F	173_Q	0.732	0.13
58_V	190_E	0.727	0.13
81_Q	171_G	0.723	0.13
154_K	164_E	0.721	0.13
68_Q	92_D	0.721	0.13
86_G	106_G	0.718	0.12
10_G	14_K	0.716	0.12
89_D	92_D	0.713	0.12
59_S	189_E	0.713	0.12
24_L	111_S	0.712	0.12
42_D	131_E	0.707	0.12
35_L	166_H	0.707	0.12
41_E	168_F	0.706	0.12
57_A	98_L	0.704	0.12
97_K	137_F	0.704	0.12
13_N	92_D	0.702	0.12
26_L	118_N	0.699	0.12
108_S	147_E	0.699	0.12
6_Q	69_I	0.698	0.12
128_N	183_Y	0.697	0.12
153_E	174_R	0.695	0.12
134_W	171_G	0.693	0.12
12_D	162_K	0.691	0.12
4_F	123_G	0.685	0.12
72_Y	104_S	0.682	0.12
20_G	166_H	0.671	0.12
13_N	115_E	0.671	0.12
80_L	136_R	0.669	0.12
4_F	108_S	0.663	0.12
80_L	216_H	0.662	0.12
19_R	74_T	0.659	0.12
34_T	131_E	0.656	0.12
58_V	68_Q	0.653	0.11
92_D	186_L	0.652	0.11
74_T	152_L	0.649	0.11
25_H	157_N	0.643	0.11
170_M	190_E	0.640	0.11
94_D	161_A	0.640	0.11
136_R	147_E	0.639	0.11
165_V	206_L	0.638	0.11
59_S	76_G	0.635	0.11
39_L	86_G	0.630	0.11
66_G	176_V	0.627	0.11
156_E	185_L	0.624	0.11
57_A	161_A	0.622	0.11
9_F	136_R	0.621	0.11
44_L	151_M	0.619	0.11
63_L	95_D	0.617	0.11
49_P	123_G	0.613	0.11
122_M	197_E	0.613	0.11
26_L	66_G	0.608	0.11
52_E	76_G	0.608	0.11
177_T	215_L	0.606	0.11
55_V	67_S	0.602	0.11
209_D	215_L	0.601	0.11
39_L	190_E	0.598	0.11
16_A	111_S	0.598	0.11
39_L	107_I	0.598	0.11
21_P	144_G	0.597	0.11
206_L	212_L	0.596	0.11
48_L	206_L	0.596	0.11
109_K	127_L	0.595	0.11
30_F	55_V	0.589	0.11
82_I	93_I	0.588	0.11
123_G	147_E	0.584	0.10
26_L	106_G	0.580	0.10
155_V	173_Q	0.574	0.10
69_I	212_L	0.573	0.10
64_G	98_L	0.571	0.10
79_F	90_I	0.570	0.10
24_L	101_Y	0.570	0.10
60_H	162_K	0.569	0.10
128_N	209_D	0.567	0.10
5_F	112_H	0.564	0.10
38_R	97_K	0.564	0.10
22_L	215_L	0.563	0.10
108_S	123_G	0.562	0.10
9_F	176_V	0.561	0.10
15_P	133_R	0.559	0.10
24_L	79_F	0.558	0.10
153_E	207_G	0.557	0.10
95_D	186_L	0.555	0.10
109_K	162_K	0.552	0.10
4_F	213_T	0.547	0.10
41_E	151_M	0.547	0.10
129_W	203_S	0.545	0.10
121_A	126_T	0.536	0.10
67_S	94_D	0.535	0.10
5_F	200_W	0.532	0.10
10_G	134_W	0.532	0.10
165_V	203_S	0.530	0.10
52_E	55_V	0.528	0.10
96_I	155_V	0.524	0.10
11_K	122_M	0.520	0.10
24_L	77_D	0.519	0.10
62_D	185_L	0.519	0.10
4_F	22_L	0.516	0.10
48_L	51_E	0.516	0.10
147_E	172_Y	0.515	0.10
8_L	136_R	0.512	0.10
27_N	59_S	0.510	0.10
14_K	112_H	0.505	0.09
21_P	167_N	0.504	0.09
69_I	205_A	0.504	0.09
9_F	213_T	0.503	0.09
150_Y	202_F	0.502	0.09
4_F	12_D	0.501	0.09
76_G	170_M	0.500	0.09

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
1qahA	3	0.1918	20.6	0.962	Contact Map
2cwjA	3	0.1735	12.4	0.965	Contact Map
2ewcA	5	0.1826	12.1	0.965	Contact Map
2ig8A	3	0.2146	11.8	0.966	Contact Map
3u7vA	3	0.4155	8.9	0.968	Contact Map
3lmeA	3	0.1826	8.2	0.968	Contact Map
4aboI	1	0.1233	7.5	0.969	Contact Map
1reqB	1	0.5205	6.2	0.97	Contact Map
3kjjA	3	0.1872	5.6	0.97	Contact Map
3pzlA	5	0.2009	4	0.972	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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