YLMH - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

YLMH - Putative RNA-binding protein YlmH

UniProt:	P71020	Sequences: MSDIYQHFRKDERAFIDQALEWKRIVQEQYRMKLTDFLDPREQVILSAVTGQADVGLAFSGGYDRAERKRAILFPEYITPEESDFELQAFNVRYADKFVSVDHRSLLGALMGIGLKRQKFGDIVFSETAVQLIVSADTADFVAAQLTQAGKAAVSLEKIDLSDLNIPAVDVEIRDDTVSSLRLDAVCASMSRQSRQKSQTLVKNGLVKVNWKVVEDPSYIVAEGDMLSIRGFGRCSLTKIEGKTKKDKWRVTFERQK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	257 (245)
Sequences:	1168 (972)
Seq/√Len:	62.1

BACSU - YLMH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
210_N	225_D	4.401	1.00
87_L	133_I	4.130	1.00
243_K	247_D	3.060	1.00
91_N	129_A	3.036	1.00
176_D	253_F	2.903	1.00
46_L	71_A	2.788	1.00
39_D	42_E	2.769	1.00
173_I	252_T	2.733	1.00
190_M	235_C	2.694	1.00
19_A	46_L	2.572	1.00
36_D	119_K	2.571	1.00
59_F	71_A	2.564	1.00
70_R	135_S	2.465	1.00
63_Y	66_A	2.436	1.00
43_Q	69_K	2.382	1.00
10_K	13_R	2.334	1.00
106_L	130_V	2.304	1.00
227_L	235_C	2.260	1.00
221_V	227_L	2.235	1.00
206_L	231_G	2.230	1.00
209_V	219_Y	2.165	1.00
34_L	70_R	2.120	1.00
187_C	198_S	2.084	1.00
89_A	161_L	2.080	1.00
176_D	189_S	2.059	1.00
177_T	244_T	2.043	1.00
88_Q	136_A	1.984	1.00
91_N	131_Q	1.951	1.00
34_L	86_E	1.914	1.00
12_E	41_R	1.914	1.00
190_M	253_F	1.905	1.00
134_V	142_V	1.897	1.00
238_T	254_E	1.853	1.00
183_L	209_V	1.850	1.00
63_Y	133_I	1.847	1.00
43_Q	59_F	1.834	1.00
93_R	157_E	1.810	1.00
191_S	229_I	1.796	1.00
141_F	145_Q	1.787	1.00
91_N	157_E	1.746	0.99
92_V	132_L	1.643	0.99
146_L	149_A	1.598	0.99
207_V	229_I	1.596	0.99
201_L	229_I	1.586	0.99
88_Q	139_A	1.582	0.99
146_L	154_V	1.579	0.99
148_Q	153_A	1.555	0.99
112_G	149_A	1.551	0.99
109_A	146_L	1.545	0.99
209_V	221_V	1.544	0.99
109_A	112_G	1.536	0.99
171_V	254_E	1.497	0.98
139_A	158_K	1.494	0.98
88_Q	158_K	1.494	0.98
74_F	80_P	1.440	0.98
106_L	149_A	1.436	0.98
119_K	137_D	1.432	0.98
149_A	154_V	1.423	0.98
183_L	207_V	1.417	0.98
223_E	239_K	1.414	0.97
140_D	143_A	1.410	0.97
205_G	215_E	1.407	0.97
211_W	234_R	1.397	0.97
119_K	138_T	1.381	0.97
24_R	28_E	1.378	0.97
175_D	250_R	1.362	0.97
181_L	237_L	1.357	0.97
191_S	235_C	1.353	0.97
61_G	66_A	1.350	0.97
236_S	254_E	1.343	0.97
228_S	234_R	1.339	0.97
133_I	164_L	1.330	0.96
99_V	152_A	1.330	0.96
18_Q	22_W	1.318	0.96
110_L	132_L	1.316	0.96
205_G	213_V	1.307	0.96
38_L	42_E	1.289	0.96
105_S	109_A	1.286	0.96
15_F	19_A	1.261	0.95
103_H	108_G	1.245	0.95
60_S	161_L	1.241	0.95
39_D	68_R	1.234	0.94
201_L	232_F	1.223	0.94
125_F	130_V	1.179	0.93
243_K	249_W	1.172	0.93
59_F	69_K	1.170	0.93
177_T	246_K	1.167	0.93
23_K	49_V	1.162	0.92
235_C	253_F	1.157	0.92
90_F	134_V	1.155	0.92
143_A	158_K	1.151	0.92
89_A	159_I	1.140	0.92
16_I	45_I	1.105	0.90
241_E	252_T	1.104	0.90
26_V	73_L	1.103	0.90
110_L	142_V	1.103	0.90
21_E	25_I	1.099	0.90
187_C	229_I	1.099	0.90
148_Q	151_K	1.097	0.90
26_V	33_K	1.094	0.90
58_A	74_F	1.081	0.89
68_R	231_G	1.080	0.89
115_L	138_T	1.074	0.89
17_D	21_E	1.072	0.89
90_F	139_A	1.065	0.89
15_F	42_E	1.056	0.88
67_E	114_G	1.055	0.88
119_K	135_S	1.054	0.88
123_I	130_V	1.050	0.88
107_L	117_R	1.048	0.88
115_L	142_V	1.047	0.88
176_D	251_V	1.038	0.87
58_A	85_F	1.033	0.87
103_H	107_L	1.026	0.87
86_E	137_D	1.018	0.86
179_S	248_K	1.017	0.86
140_D	144_A	1.012	0.86
94_Y	106_L	1.009	0.86
50_T	57_L	1.009	0.86
32_M	78_I	1.007	0.86
242_G	250_R	1.007	0.86
178_V	251_V	0.995	0.85
244_T	250_R	0.974	0.84
244_T	247_D	0.973	0.84
40_P	67_E	0.971	0.84
177_T	248_K	0.963	0.83
106_L	129_A	0.960	0.83
96_D	128_T	0.952	0.83
111_M	117_R	0.950	0.82
174_R	192_R	0.948	0.82
40_P	211_W	0.948	0.82
113_I	146_L	0.940	0.82
92_V	106_L	0.938	0.82
57_L	71_A	0.935	0.81
197_K	200_T	0.931	0.81
90_F	137_D	0.918	0.80
177_T	245_K	0.907	0.79
22_W	33_K	0.903	0.79
237_L	253_F	0.902	0.79
12_E	45_I	0.895	0.78
110_L	120_F	0.895	0.78
103_H	117_R	0.893	0.78
67_E	234_R	0.892	0.78
70_R	86_E	0.892	0.78
85_F	149_A	0.891	0.78
106_L	123_I	0.887	0.78
112_G	150_G	0.884	0.78
106_L	113_I	0.882	0.77
20_L	49_V	0.881	0.77
30_Y	77_Y	0.880	0.77
183_L	202_V	0.880	0.77
226_M	234_R	0.879	0.77
19_A	22_W	0.877	0.77
177_T	250_R	0.875	0.77
90_F	132_L	0.872	0.77
139_A	142_V	0.872	0.77
175_D	241_E	0.869	0.76
133_I	161_L	0.869	0.76
238_T	252_T	0.866	0.76
74_F	77_Y	0.865	0.76
40_P	208_K	0.864	0.76
61_G	68_R	0.861	0.76
186_V	221_V	0.861	0.76
92_V	154_V	0.860	0.76
140_D	158_K	0.857	0.75
112_G	148_Q	0.856	0.75
101_V	106_L	0.855	0.75
175_D	252_T	0.855	0.75
43_Q	71_A	0.855	0.75
139_A	143_A	0.848	0.75
199_Q	217_P	0.847	0.75
208_K	234_R	0.845	0.74
200_T	203_K	0.834	0.73
63_Y	124_V	0.833	0.73
137_D	197_K	0.831	0.73
120_F	142_V	0.827	0.73
191_S	232_F	0.827	0.73
60_S	87_L	0.827	0.73
208_K	228_S	0.822	0.72
181_L	240_I	0.820	0.72
199_Q	220_I	0.820	0.72
131_Q	165_N	0.811	0.71
124_V	133_I	0.810	0.71
179_S	185_A	0.808	0.71
60_S	133_I	0.804	0.71
120_F	134_V	0.801	0.70
42_E	118_Q	0.797	0.70
237_L	251_V	0.792	0.69
38_L	43_Q	0.791	0.69
34_L	85_F	0.790	0.69
206_L	230_R	0.789	0.69
30_Y	131_Q	0.782	0.68
214_V	219_Y	0.782	0.68
193_Q	232_F	0.780	0.68
104_R	117_R	0.779	0.68
107_L	111_M	0.778	0.68
223_E	240_I	0.775	0.68
199_Q	203_K	0.774	0.68
21_E	73_L	0.773	0.68
129_A	165_N	0.772	0.67
138_T	202_V	0.765	0.67
150_G	211_W	0.763	0.67
34_L	72_I	0.761	0.66
183_L	214_V	0.760	0.66
189_S	248_K	0.759	0.66
32_M	72_I	0.758	0.66
67_E	70_R	0.755	0.66
30_Y	75_P	0.753	0.66
187_C	191_S	0.751	0.65
92_V	130_V	0.747	0.65
89_A	133_I	0.742	0.64
94_Y	152_A	0.741	0.64
108_G	117_R	0.740	0.64
35_T	38_L	0.740	0.64
202_V	217_P	0.738	0.64
131_Q	159_I	0.736	0.64
96_D	127_E	0.733	0.63
200_T	204_N	0.731	0.63
35_T	70_R	0.731	0.63
108_G	234_R	0.723	0.62
108_G	228_S	0.722	0.62
189_S	253_F	0.722	0.62
89_A	164_L	0.722	0.62
23_K	50_T	0.721	0.62
92_V	156_L	0.721	0.62
62_G	68_R	0.720	0.62
21_E	28_E	0.719	0.62
138_T	141_F	0.716	0.62
127_E	168_A	0.714	0.61
88_Q	138_T	0.712	0.61
27_Q	55_V	0.711	0.61
50_T	71_A	0.709	0.61
196_Q	199_Q	0.707	0.61
130_V	199_Q	0.706	0.61
93_R	128_T	0.704	0.60
73_L	208_K	0.702	0.60
201_L	206_L	0.701	0.60
78_I	84_D	0.700	0.60
240_I	251_V	0.699	0.60
12_E	15_F	0.697	0.60
20_L	24_R	0.693	0.59
135_S	138_T	0.690	0.59
106_L	156_L	0.687	0.58
223_E	251_V	0.685	0.58
90_F	120_F	0.685	0.58
102_D	188_A	0.684	0.58
208_K	211_W	0.683	0.58
241_E	250_R	0.682	0.58
102_D	105_S	0.680	0.58
175_D	244_T	0.679	0.58
21_E	117_R	0.673	0.57
180_S	205_G	0.673	0.57
32_M	80_P	0.672	0.57
38_L	46_L	0.667	0.56
126_S	129_A	0.660	0.55
193_Q	204_N	0.654	0.55
41_R	45_I	0.654	0.55
12_E	42_E	0.653	0.55
193_Q	229_I	0.652	0.55
173_I	254_E	0.650	0.54
105_S	145_Q	0.650	0.54
134_V	159_I	0.645	0.54
131_Q	164_L	0.644	0.54
132_L	146_L	0.643	0.53
183_L	206_L	0.643	0.53
11_D	57_L	0.643	0.53
115_L	120_F	0.639	0.53
73_L	234_R	0.638	0.53
11_D	15_F	0.637	0.53
39_D	178_V	0.634	0.52
16_I	49_V	0.632	0.52
116_K	119_K	0.631	0.52
103_H	234_R	0.630	0.52
231_G	244_T	0.628	0.52
142_V	192_R	0.627	0.52
197_K	244_T	0.625	0.51
107_L	123_I	0.623	0.51
62_G	66_A	0.622	0.51
100_S	155_S	0.622	0.51
25_I	130_V	0.620	0.51
134_V	139_A	0.617	0.51
227_L	237_L	0.616	0.50
177_T	190_M	0.616	0.50
39_D	51_G	0.611	0.50
12_E	100_S	0.611	0.50
186_V	225_D	0.608	0.50
227_L	252_T	0.606	0.49
176_D	190_M	0.602	0.49
23_K	51_G	0.600	0.49
48_A	51_G	0.600	0.49
188_A	197_K	0.599	0.48
24_R	82_E	0.599	0.48
76_E	79_T	0.596	0.48
174_R	177_T	0.595	0.48
15_F	73_L	0.595	0.48
103_H	230_R	0.592	0.48
190_M	247_D	0.590	0.47
123_I	246_K	0.585	0.47
188_A	230_R	0.585	0.47
39_D	228_S	0.584	0.47
105_S	191_S	0.582	0.47
193_Q	197_K	0.580	0.46
41_R	44_V	0.580	0.46
47_S	51_G	0.579	0.46
77_Y	185_A	0.578	0.46
58_A	186_V	0.578	0.46
136_A	140_D	0.577	0.46
197_K	232_F	0.575	0.46
171_V	236_S	0.575	0.46
172_E	192_R	0.574	0.46
111_M	142_V	0.573	0.46
112_G	141_F	0.573	0.46
62_G	133_I	0.573	0.46
75_P	78_I	0.572	0.45
74_F	78_I	0.571	0.45
55_V	78_I	0.571	0.45
107_L	246_K	0.570	0.45
30_Y	41_R	0.570	0.45
18_Q	21_E	0.567	0.45
52_Q	234_R	0.565	0.45
104_R	224_G	0.564	0.45
104_R	155_S	0.563	0.44
25_I	28_E	0.562	0.44
209_V	214_V	0.561	0.44
15_F	45_I	0.561	0.44
133_I	159_I	0.558	0.44
45_I	228_S	0.558	0.44
45_I	75_P	0.558	0.44
70_R	210_N	0.558	0.44
73_L	247_D	0.558	0.44
190_M	229_I	0.557	0.44
172_E	237_L	0.557	0.44
17_D	45_I	0.556	0.44
103_H	228_S	0.553	0.43
41_R	77_Y	0.551	0.43
155_S	221_V	0.545	0.42
183_L	205_G	0.544	0.42
91_N	159_I	0.543	0.42
95_A	98_F	0.543	0.42
45_I	106_L	0.542	0.42
21_E	29_Q	0.535	0.41
181_L	186_V	0.532	0.41
75_P	117_R	0.532	0.41
94_Y	98_F	0.532	0.41
222_A	225_D	0.532	0.41
19_A	71_A	0.531	0.41
22_W	102_D	0.531	0.41
44_V	134_V	0.529	0.41
120_F	138_T	0.528	0.40
176_D	235_C	0.526	0.40
132_L	156_L	0.524	0.40
114_G	141_F	0.520	0.40
49_V	222_A	0.519	0.39
13_R	109_A	0.516	0.39
143_A	149_A	0.516	0.39
56_G	158_K	0.515	0.39
187_C	207_V	0.513	0.39
237_L	240_I	0.513	0.39
89_A	132_L	0.510	0.39
192_R	198_S	0.510	0.39
173_I	203_K	0.509	0.38
92_V	149_A	0.508	0.38
126_S	145_Q	0.507	0.38
35_T	151_K	0.506	0.38
123_I	132_L	0.502	0.38
110_L	163_D	0.502	0.38
116_K	141_F	0.500	0.37
39_D	43_Q	0.500	0.37

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
2fphX	1	0.6381	100	0.436	Contact Map
4tp8D	1	0.6498	99	0.859	Contact Map
2k6pA	1	0.2957	99	0.86	Contact Map
3zey6	1	0.6148	98.9	0.864	Contact Map
4bpeD	2	0.607	98.7	0.873	Contact Map
2cqjA	1	0.2646	98.7	0.875	Contact Map
1dm9A	1	0.3152	98.6	0.878	Contact Map
3bbnD	1	0.6304	98.6	0.878	Contact Map
1vioA	2	0.2724	98.6	0.878	Contact Map
3j80J	1	0.6226	98.6	0.878	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.

Page generated in 0.0083 seconds.