RECO - BACSU - GREMLIN Contacts

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RECO - DNA repair protein RecO

UniProt:	P42095	Sequences: MLTKCEGIVLRTNDYGETNKIVTLLTREHGKIGVMARGAKKPNSRLSAVSQPFLYGSFLMQKTSGLGTLQQGEMILSMRGIREDLFLTAYAAYVAELVDRGTEEKKPNPYLFEFILESLKQLNEGTDPDVITFIVQMKMLGVMGLYPELNHCVHCKSQDGTFHFSVRDNGFICHRCFEKDPYRIPIKPQTARLLRLFYYFDLSRLGNVSLKEETKAELKQVIDLYYEEYSGLYLKSKRFLDQMESMKHLMGENKS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	255 (235)
Sequences:	2998 (2340)
Seq/√Len:	152.6

ECOLI - RECO
BACSU - RECO

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
7_G	24_L	3.601	1.00
155_C	173_C	3.543	1.00
31_K	99_D	3.470	1.00
190_T	217_E	3.412	1.00
24_L	34_V	3.347	1.00
94_V	118_S	3.304	1.00
24_L	58_F	3.071	1.00
155_C	176_C	2.953	1.00
6_E	27_R	2.878	1.00
173_C	176_C	2.758	1.00
27_R	113_E	2.613	1.00
7_G	58_F	2.474	1.00
93_Y	136_Q	2.427	1.00
152_C	155_C	2.409	1.00
34_V	69_L	2.375	1.00
98_V	135_V	2.322	1.00
5_C	28_E	2.194	1.00
8_I	116_L	2.180	1.00
187_K	217_E	2.117	1.00
34_V	60_M	2.103	1.00
118_S	131_I	2.072	1.00
127_D	215_K	2.051	1.00
35_M	66_L	2.030	1.00
98_V	115_I	1.986	1.00
55_Y	112_F	1.981	1.00
94_V	115_I	1.973	1.00
7_G	26_T	1.968	1.00
187_K	190_T	1.959	1.00
21_I	33_G	1.908	1.00
97_L	136_Q	1.845	1.00
14_D	40_K	1.831	1.00
76_L	120_K	1.795	1.00
49_V	72_G	1.717	1.00
137_M	222_I	1.702	1.00
8_I	115_I	1.691	1.00
23_T	31_K	1.690	1.00
22_V	50_S	1.655	1.00
20_K	39_A	1.614	1.00
25_L	98_V	1.614	1.00
157_S	175_R	1.578	1.00
80_G	123_N	1.569	1.00
5_C	29_H	1.559	1.00
84_D	87_L	1.524	1.00
4_K	57_S	1.516	1.00
152_C	173_C	1.507	1.00
171_F	191_A	1.498	1.00
59_L	71_Q	1.496	1.00
33_G	66_L	1.490	1.00
37_R	68_T	1.486	1.00
14_D	20_K	1.455	1.00
10_L	52_P	1.450	1.00
21_I	66_L	1.439	1.00
25_L	108_N	1.422	1.00
148_E	151_H	1.418	1.00
15_Y	21_I	1.415	1.00
108_N	142_V	1.381	1.00
55_Y	78_M	1.372	1.00
54_L	74_M	1.361	1.00
133_F	136_Q	1.358	1.00
74_M	77_S	1.354	1.00
62_K	67_G	1.347	1.00
212_E	216_A	1.329	1.00
12_T	20_K	1.321	1.00
129_D	219_K	1.319	1.00
6_E	55_Y	1.311	1.00
53_F	91_A	1.310	1.00
4_K	59_L	1.309	1.00
101_G	143_M	1.298	1.00
186_I	190_T	1.289	1.00
155_C	158_Q	1.270	1.00
223_D	237_K	1.269	1.00
87_L	125_G	1.267	1.00
55_Y	116_L	1.267	1.00
164_F	225_Y	1.265	1.00
91_A	95_A	1.259	1.00
13_N	21_I	1.247	1.00
85_L	89_A	1.245	1.00
78_M	116_L	1.234	1.00
78_M	119_L	1.231	1.00
227_E	233_Y	1.217	1.00
152_C	176_C	1.207	1.00
6_E	57_S	1.199	1.00
165_S	168_D	1.196	1.00
23_T	33_G	1.191	1.00
233_Y	238_R	1.189	1.00
165_S	170_G	1.185	1.00
16_G	19_N	1.183	1.00
188_P	192_R	1.174	1.00
152_C	158_Q	1.164	1.00
116_L	120_K	1.159	1.00
163_H	170_G	1.143	1.00
31_K	102_T	1.142	1.00
13_N	23_T	1.137	1.00
15_Y	35_M	1.127	1.00
136_Q	219_K	1.123	1.00
57_S	73_E	1.119	1.00
21_I	35_M	1.106	0.99
55_Y	76_L	1.103	0.99
60_M	67_G	1.100	0.99
12_T	22_V	1.100	0.99
6_E	75_I	1.097	0.99
49_V	52_P	1.094	0.99
188_P	191_A	1.084	0.99
137_M	197_F	1.081	0.99
166_V	169_N	1.072	0.99
96_E	236_S	1.066	0.99
141_G	146_Y	1.066	0.99
164_F	169_N	1.064	0.99
223_D	241_D	1.056	0.99
94_V	132_T	1.049	0.99
90_Y	132_T	1.048	0.99
87_L	128_P	1.036	0.99
167_R	170_G	1.030	0.99
18_T	40_K	1.029	0.99
16_G	35_M	1.025	0.99
93_Y	133_F	1.025	0.99
22_V	36_A	1.016	0.99
9_V	24_L	1.014	0.99
129_D	215_K	1.012	0.99
10_L	31_K	1.007	0.99
36_A	69_L	1.005	0.99
111_L	135_V	1.005	0.99
63_T	67_G	0.990	0.99
56_G	72_G	0.988	0.99
110_Y	142_V	0.976	0.99
22_V	34_V	0.976	0.99
193_L	210_L	0.972	0.99
6_E	116_L	0.965	0.99
61_Q	70_Q	0.964	0.98
197_F	218_L	0.963	0.98
98_V	102_T	0.961	0.98
5_C	27_R	0.954	0.98
100_R	232_L	0.952	0.98
130_V	215_K	0.950	0.98
26_T	30_G	0.949	0.98
133_F	226_Y	0.917	0.98
26_T	32_I	0.912	0.98
54_L	78_M	0.911	0.98
186_I	221_V	0.909	0.98
180_D	183_R	0.909	0.98
111_L	139_M	0.907	0.98
136_Q	140_L	0.898	0.98
10_L	99_D	0.896	0.98
160_G	163_H	0.892	0.98
93_Y	132_T	0.887	0.97
32_I	36_A	0.886	0.97
38_G	41_K	0.881	0.97
235_K	238_R	0.880	0.97
91_A	122_L	0.879	0.97
9_V	22_V	0.877	0.97
238_R	242_Q	0.876	0.97
76_L	123_N	0.875	0.97
228_E	231_G	0.875	0.97
25_L	102_T	0.874	0.97
90_Y	240_L	0.873	0.97
86_F	128_P	0.871	0.97
134_I	138_K	0.862	0.97
222_I	226_Y	0.861	0.97
100_R	234_L	0.860	0.97
102_T	111_L	0.859	0.97
136_Q	223_D	0.858	0.97
29_H	60_M	0.857	0.97
19_N	41_K	0.855	0.97
114_F	138_K	0.854	0.97
61_Q	68_T	0.851	0.97
26_T	29_H	0.850	0.97
153_V	170_G	0.847	0.97
162_F	169_N	0.845	0.97
93_Y	223_D	0.843	0.97
159_D	162_F	0.842	0.96
189_Q	214_T	0.841	0.96
46_L	69_L	0.836	0.96
15_Y	33_G	0.828	0.96
36_A	50_S	0.824	0.96
36_A	46_L	0.824	0.96
154_H	176_C	0.822	0.96
79_R	83_E	0.819	0.96
110_Y	113_E	0.819	0.96
216_A	220_Q	0.817	0.96
28_E	109_P	0.816	0.96
93_Y	97_L	0.814	0.96
132_T	136_Q	0.813	0.96
78_M	120_K	0.809	0.96
42_P	46_L	0.806	0.95
192_R	196_L	0.796	0.95
19_N	38_G	0.794	0.95
95_A	115_I	0.785	0.95
190_T	218_L	0.780	0.95
11_R	23_T	0.779	0.95
214_T	217_E	0.778	0.95
95_A	119_L	0.777	0.95
137_M	194_L	0.773	0.94
165_S	169_N	0.773	0.94
49_V	74_M	0.770	0.94
121_Q	131_I	0.765	0.94
25_L	111_L	0.761	0.94
24_L	60_M	0.759	0.94
114_F	142_V	0.757	0.94
36_A	72_G	0.754	0.94
39_A	44_S	0.749	0.93
166_V	224_L	0.749	0.93
137_M	147_P	0.748	0.93
166_V	228_E	0.745	0.93
22_V	52_P	0.744	0.93
106_K	145_L	0.741	0.93
192_R	195_R	0.741	0.93
136_Q	237_K	0.739	0.93
201_D	204_R	0.735	0.93
27_R	109_P	0.732	0.93
14_D	21_I	0.730	0.92
115_I	236_S	0.723	0.92
217_E	224_L	0.710	0.91
53_F	92_A	0.710	0.91
18_T	38_G	0.707	0.91
93_Y	240_L	0.705	0.91
36_A	48_A	0.704	0.91
46_L	72_G	0.703	0.91
177_F	183_R	0.702	0.91
19_N	35_M	0.701	0.91
163_H	183_R	0.696	0.91
24_L	56_G	0.695	0.91
15_Y	66_L	0.692	0.90
227_E	237_K	0.687	0.90
186_I	217_E	0.686	0.90
78_M	123_N	0.684	0.90
211_K	214_T	0.684	0.90
76_L	116_L	0.683	0.90
23_T	99_D	0.681	0.90
152_C	156_K	0.681	0.90
162_F	172_I	0.680	0.90
148_E	153_V	0.680	0.90
31_K	104_E	0.679	0.89
49_V	56_G	0.677	0.89
164_F	221_V	0.676	0.89
32_I	67_G	0.676	0.89
18_T	41_K	0.676	0.89
119_L	161_T	0.670	0.89
19_N	37_R	0.670	0.89
159_D	163_H	0.669	0.89
16_G	37_R	0.668	0.89
81_I	88_T	0.668	0.89
120_K	207_N	0.667	0.89
19_N	40_K	0.665	0.89
65_G	104_E	0.663	0.88
152_C	157_S	0.660	0.88
43_N	121_Q	0.660	0.88
51_Q	82_R	0.659	0.88
94_V	111_L	0.657	0.88
117_E	121_Q	0.655	0.88
25_L	115_I	0.646	0.87
33_G	104_E	0.645	0.87
97_L	234_L	0.642	0.87
194_L	218_L	0.641	0.87
189_Q	204_R	0.637	0.86
37_R	137_M	0.635	0.86
189_Q	192_R	0.630	0.86
42_P	45_R	0.628	0.86
163_H	169_N	0.627	0.85
81_I	92_A	0.625	0.85
17_E	105_K	0.625	0.85
200_F	204_R	0.624	0.85
38_G	42_P	0.622	0.85
10_L	95_A	0.622	0.85
130_V	210_L	0.621	0.85
5_C	26_T	0.621	0.85
133_F	219_K	0.619	0.85
167_R	228_E	0.619	0.85
98_V	139_M	0.617	0.85
200_F	205_L	0.612	0.84
115_I	135_V	0.608	0.84
85_L	239_F	0.607	0.84
218_L	221_V	0.605	0.83
162_F	170_G	0.601	0.83
64_S	67_G	0.600	0.83
164_F	168_D	0.599	0.83
210_L	214_T	0.597	0.83
150_N	195_R	0.595	0.82
46_L	49_V	0.594	0.82
29_H	62_K	0.594	0.82
154_H	178_E	0.592	0.82
84_D	89_A	0.590	0.82
160_G	174_H	0.590	0.82
147_P	222_I	0.590	0.82
82_R	88_T	0.588	0.82
52_P	92_A	0.587	0.82
108_N	111_L	0.587	0.82
141_G	198_Y	0.587	0.82
44_S	48_A	0.583	0.81
94_V	122_L	0.578	0.81
130_V	222_I	0.576	0.80
157_S	160_G	0.576	0.80
105_K	108_N	0.574	0.80
102_T	108_N	0.573	0.80
10_L	25_L	0.571	0.80
189_Q	193_L	0.570	0.80
145_L	231_G	0.569	0.79
69_L	72_G	0.566	0.79
25_L	107_P	0.566	0.79
191_A	195_R	0.565	0.79
138_K	200_F	0.563	0.79
81_I	91_A	0.554	0.78
151_H	171_F	0.553	0.78
8_I	55_Y	0.552	0.77
164_F	171_F	0.552	0.77
8_I	112_F	0.551	0.77
139_M	143_M	0.550	0.77
164_F	170_G	0.549	0.77
220_Q	224_L	0.548	0.77
12_T	52_P	0.548	0.77
103_E	106_K	0.545	0.77
37_R	40_K	0.543	0.76
93_Y	96_E	0.542	0.76
175_R	178_E	0.542	0.76
114_F	117_E	0.542	0.76
50_S	58_F	0.537	0.75
163_H	166_V	0.537	0.75
234_L	238_R	0.537	0.75
210_L	218_L	0.535	0.75
51_Q	54_L	0.535	0.75
36_A	194_L	0.535	0.75
40_K	61_Q	0.534	0.75
26_T	82_R	0.534	0.75
107_P	110_Y	0.534	0.75
39_A	50_S	0.528	0.74
39_A	88_T	0.527	0.74
17_E	38_G	0.523	0.74
117_E	120_K	0.522	0.73
187_K	214_T	0.520	0.73
81_I	122_L	0.518	0.73
52_P	95_A	0.518	0.73
224_L	228_E	0.517	0.73
147_P	225_Y	0.517	0.73
93_Y	237_K	0.517	0.73
20_K	44_S	0.516	0.73
81_I	85_L	0.515	0.72
80_G	83_E	0.514	0.72
162_F	165_S	0.512	0.72
13_N	33_G	0.511	0.72
44_S	47_S	0.511	0.72
141_G	147_P	0.511	0.72
78_M	81_I	0.510	0.72
24_L	104_E	0.507	0.71
238_R	241_D	0.507	0.71
226_Y	230_S	0.507	0.71
44_S	49_V	0.507	0.71
11_R	99_D	0.507	0.71
118_S	121_Q	0.506	0.71
162_F	196_L	0.506	0.71
71_Q	90_Y	0.505	0.71
177_F	185_P	0.502	0.71
48_A	235_K	0.501	0.70
150_N	199_Y	0.500	0.70

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
1u5kA	2	0.9373	100	0.194	Contact Map
3q8dA	1	0.8902	100	0.231	Contact Map
3lvqE	1	0.4431	72.1	0.928	Contact Map
2owaA	1	0.4667	64.8	0.932	Contact Map
1d4uA	1	0.4196	63	0.933	Contact Map
1dcqA	1	0.3922	61.9	0.933	Contact Map
3subA	1	0.4314	50.2	0.938	Contact Map
4bbrM	1	0.3725	47.4	0.939	Contact Map
2b0oE	3	0.4706	47.4	0.939	Contact Map
2olmA	2	0.4588	45.1	0.94	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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