YRPE - BACSU - GREMLIN Contacts

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YRPE - Probable metal-binding protein YrpE

UniProt:	O05410	Sequences: MNILFSKRLGILTIGSLLVLAGCQTSGSSAGESNQTTSSSAVEEDSSKTQEQTSDSHTHEHSHDHSHAHDEETEKIYEGYFKNSQVKDRLLSDWEGDWQSVYPYLQDGTLDEVFSYKSEHEGGKTAEEYKEYYKKGYQTDVDRIVIQKDTVTFFKNGKEYSGKYTYDGYEILTYDAGNRGVRYIFKLAKKAEGLPQYIQFSDHSIYPTKASHYHLYWGDDREALLDEVKNWPTYYPSKMDGHDIAHEMMAH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	251 (197)
Sequences:	292 (199)
Seq/√Len:	14.2

ECOLI - ZINT
BACSU - YRPE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
86_V	171_I	5.405	1.00
88_D	166_Y	4.221	1.00
109_T	241_G	3.904	1.00
151_V	198_I	3.707	0.99
235_Y	247_E	3.360	0.99
104_Y	244_I	3.246	0.98
198_I	215_L	3.185	0.98
145_V	154_F	2.536	0.93
149_D	163_K	2.528	0.93
176_A	179_R	2.496	0.93
184_I	221_R	2.455	0.92
204_S	208_T	2.387	0.91
157_G	243_D	2.382	0.91
84_S	104_Y	2.362	0.90
97_D	143_R	2.354	0.90
240_D	243_D	2.326	0.90
114_F	130_K	2.248	0.88
162_G	187_L	2.080	0.84
162_G	219_D	2.076	0.83
175_D	243_D	2.075	0.83
61_H	65_H	2.039	0.82
224_L	228_V	2.030	0.82
216_Y	228_V	2.022	0.82
77_Y	135_K	2.007	0.81
165_T	188_A	1.996	0.81
75_K	78_E	1.984	0.80
167_D	186_K	1.939	0.79
235_Y	248_M	1.865	0.76
80_Y	176_A	1.816	0.74
114_F	126_A	1.812	0.74
184_I	228_V	1.784	0.73
194_L	219_D	1.772	0.72
245_A	249_M	1.753	0.71
104_Y	241_G	1.720	0.70
187_L	194_L	1.704	0.69
80_Y	178_N	1.636	0.66
131_E	222_E	1.635	0.66
216_Y	224_L	1.627	0.65
142_D	156_N	1.606	0.64
107_D	241_G	1.601	0.64
174_Y	199_Q	1.593	0.64
152_T	159_E	1.588	0.63
143_R	237_S	1.566	0.62
55_D	58_T	1.558	0.62
63_H	66_S	1.529	0.60
94_W	216_Y	1.503	0.59
170_E	216_Y	1.487	0.58
77_Y	216_Y	1.474	0.57
243_D	246_H	1.472	0.57
167_D	221_R	1.450	0.56
198_I	217_W	1.431	0.55
220_D	223_A	1.419	0.54
112_E	242_H	1.399	0.53
151_V	215_L	1.395	0.53
239_M	247_E	1.381	0.52
80_Y	179_R	1.372	0.52
76_I	85_Q	1.357	0.51
186_K	221_R	1.328	0.49
116_Y	119_E	1.308	0.48
143_R	154_F	1.263	0.46
55_D	59_H	1.260	0.46
162_G	194_L	1.237	0.44
174_Y	201_S	1.196	0.42
55_D	62_S	1.183	0.42
88_D	130_K	1.174	0.41
167_D	220_D	1.168	0.41
169_Y	226_D	1.164	0.41
216_Y	229_K	1.150	0.40
160_Y	193_G	1.149	0.40
141_V	234_Y	1.140	0.39
130_K	134_K	1.128	0.39
64_D	67_H	1.120	0.38
183_Y	230_N	1.102	0.37
71_E	239_M	1.092	0.37
113_V	201_S	1.080	0.36
79_G	172_L	1.066	0.36
116_Y	195_P	1.066	0.36
73_T	156_N	1.057	0.35
204_S	210_A	1.055	0.35
87_K	206_Y	1.052	0.35
113_V	174_Y	1.029	0.34
104_Y	107_D	1.025	0.34
183_Y	206_Y	1.020	0.33
95_E	147_Q	1.009	0.33
57_H	61_H	1.006	0.33
204_S	211_S	0.969	0.31
195_P	246_H	0.968	0.31
130_K	208_T	0.962	0.31
80_Y	244_I	0.957	0.30
56_S	62_S	0.956	0.30
151_V	217_W	0.950	0.30
142_D	155_K	0.946	0.30
113_V	199_Q	0.944	0.30
126_A	130_K	0.940	0.30
208_T	223_A	0.935	0.29
82_K	128_E	0.933	0.29
62_S	65_H	0.924	0.29
102_Y	234_Y	0.917	0.28
63_H	68_A	0.916	0.28
63_H	67_H	0.912	0.28
60_E	67_H	0.907	0.28
112_E	194_L	0.905	0.28
63_H	94_W	0.897	0.28
95_E	156_N	0.895	0.28
56_S	59_H	0.871	0.26
87_K	207_P	0.870	0.26
82_K	85_Q	0.867	0.26
56_S	66_S	0.864	0.26
180_G	201_S	0.859	0.26
187_L	190_K	0.858	0.26
99_Q	103_P	0.849	0.26
90_L	131_E	0.844	0.25
101_V	235_Y	0.844	0.25
239_M	243_D	0.842	0.25
160_Y	222_E	0.842	0.25
84_S	87_K	0.840	0.25
92_S	148_K	0.837	0.25
138_Q	209_K	0.837	0.25
155_K	183_Y	0.835	0.25
80_Y	83_N	0.835	0.25
148_K	215_L	0.834	0.25
59_H	63_H	0.832	0.25
136_G	199_Q	0.814	0.24
131_E	134_K	0.813	0.24
97_D	237_S	0.811	0.24
114_F	190_K	0.806	0.24
162_G	192_E	0.804	0.24
56_S	60_E	0.802	0.24
223_A	228_V	0.800	0.24
181_V	201_S	0.800	0.24
100_S	103_P	0.792	0.23
182_R	201_S	0.790	0.23
97_D	102_Y	0.784	0.23
178_N	250_A	0.783	0.23
68_A	104_Y	0.782	0.23
150_T	163_K	0.781	0.23
142_D	148_K	0.779	0.23
148_K	175_D	0.771	0.22
196_Q	229_K	0.771	0.22
190_K	220_D	0.768	0.22
99_Q	109_T	0.763	0.22
108_G	168_G	0.762	0.22
174_Y	180_G	0.761	0.22
140_D	160_Y	0.756	0.22
93_D	207_P	0.756	0.22
226_D	241_G	0.756	0.22
86_V	132_Y	0.751	0.22
199_Q	227_E	0.749	0.22
215_L	221_R	0.748	0.22
170_E	221_R	0.747	0.22
104_Y	240_D	0.745	0.21
180_G	199_Q	0.745	0.21
174_Y	181_V	0.741	0.21
112_E	115_S	0.738	0.21
184_I	229_K	0.737	0.21
187_L	192_E	0.737	0.21
224_L	249_M	0.737	0.21
89_R	108_G	0.736	0.21
151_V	220_D	0.736	0.21
85_Q	186_K	0.730	0.21
71_E	75_K	0.730	0.21
94_W	208_T	0.728	0.21
94_W	215_L	0.728	0.21
175_D	219_D	0.727	0.21
174_Y	182_R	0.724	0.21
84_S	246_H	0.724	0.21
183_Y	239_M	0.724	0.21
108_G	202_D	0.724	0.21
181_V	199_Q	0.720	0.21
172_L	180_G	0.719	0.21
165_T	170_E	0.719	0.21
64_D	193_G	0.719	0.21
76_I	80_Y	0.717	0.20
123_G	130_K	0.717	0.20
119_E	246_H	0.717	0.20
94_W	210_A	0.715	0.20
140_D	155_K	0.713	0.20
71_E	186_K	0.712	0.20
101_V	141_V	0.708	0.20
62_S	66_S	0.707	0.20
147_Q	249_M	0.705	0.20
113_V	180_G	0.704	0.20
140_D	211_S	0.702	0.20
113_V	181_V	0.699	0.20
163_K	206_Y	0.698	0.20
155_K	158_K	0.698	0.20
123_G	129_Y	0.693	0.20
182_R	199_Q	0.689	0.19
159_E	240_D	0.687	0.19
90_L	149_D	0.681	0.19
116_Y	167_D	0.679	0.19
158_K	240_D	0.677	0.19
97_D	145_V	0.674	0.19
56_S	61_H	0.673	0.19
105_L	110_L	0.672	0.19
85_Q	213_Y	0.670	0.19
82_K	158_K	0.669	0.19
162_G	195_P	0.669	0.19
130_K	145_V	0.666	0.19
57_H	63_H	0.666	0.19
219_D	242_H	0.665	0.19
145_V	159_E	0.661	0.19
113_V	182_R	0.659	0.18
79_G	180_G	0.657	0.18
68_A	175_D	0.656	0.18
68_A	73_T	0.651	0.18
235_Y	239_M	0.650	0.18
239_M	248_M	0.649	0.18
78_E	247_E	0.648	0.18
82_K	246_H	0.647	0.18
55_D	61_H	0.646	0.18
82_K	130_K	0.637	0.18
216_Y	230_N	0.636	0.18
95_E	189_K	0.636	0.18
186_K	246_H	0.635	0.18
176_A	250_A	0.632	0.18
137_Y	200_F	0.628	0.17
152_T	237_S	0.626	0.17
74_E	223_A	0.626	0.17
116_Y	246_H	0.625	0.17
175_D	238_K	0.622	0.17
189_K	192_E	0.621	0.17
149_D	238_K	0.621	0.17
55_D	219_D	0.619	0.17
121_E	220_D	0.618	0.17
196_Q	209_K	0.616	0.17
149_D	165_T	0.614	0.17
111_D	171_I	0.613	0.17
238_K	242_H	0.613	0.17
138_Q	176_A	0.608	0.17
135_K	223_A	0.606	0.17
174_Y	227_E	0.605	0.17
94_W	176_A	0.605	0.17
74_E	165_T	0.599	0.17
108_G	164_Y	0.597	0.17
84_S	90_L	0.594	0.16
188_A	243_D	0.593	0.16
126_A	129_Y	0.592	0.16
67_H	72_E	0.591	0.16
55_D	71_E	0.590	0.16
145_V	165_T	0.590	0.16
62_S	72_E	0.590	0.16
175_D	226_D	0.588	0.16
104_Y	238_K	0.586	0.16
142_D	208_T	0.581	0.16
66_S	243_D	0.579	0.16
114_F	189_K	0.577	0.16
71_E	222_E	0.576	0.16
149_D	241_G	0.575	0.16
172_L	181_V	0.575	0.16
132_Y	171_I	0.570	0.16
170_E	228_V	0.565	0.16
165_T	175_D	0.565	0.16
141_V	215_L	0.563	0.16
136_G	174_Y	0.560	0.15
127_E	192_E	0.559	0.15
172_L	182_R	0.559	0.15
89_R	168_G	0.557	0.15
64_D	226_D	0.557	0.15
59_H	145_V	0.556	0.15
159_E	222_E	0.556	0.15
188_A	206_Y	0.555	0.15
111_D	130_K	0.555	0.15
65_H	112_E	0.554	0.15
234_Y	250_A	0.554	0.15
222_E	237_S	0.552	0.15
115_S	192_E	0.552	0.15
108_G	132_Y	0.552	0.15
168_G	202_D	0.549	0.15
94_W	106_Q	0.548	0.15
87_K	138_Q	0.541	0.15
84_S	158_K	0.536	0.15
89_R	202_D	0.535	0.15
59_H	243_D	0.533	0.15
125_T	156_N	0.531	0.15
184_I	225_L	0.530	0.15
55_D	76_I	0.530	0.15
59_H	66_S	0.530	0.15
213_Y	241_G	0.526	0.14
81_F	235_Y	0.523	0.14
150_T	223_A	0.522	0.14
147_Q	157_G	0.520	0.14
187_L	197_Y	0.519	0.14
213_Y	228_V	0.518	0.14
148_K	211_S	0.517	0.14
151_V	213_Y	0.515	0.14
125_T	128_E	0.515	0.14
150_T	204_S	0.515	0.14
94_W	204_S	0.513	0.14
60_E	65_H	0.512	0.14
172_L	201_S	0.510	0.14
59_H	65_H	0.507	0.14
179_R	250_A	0.507	0.14
172_L	199_Q	0.505	0.14
132_Y	164_Y	0.503	0.14
201_S	230_N	0.500	0.14

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
1txlA	1	0.745	100	0.277	Contact Map
2o1eA	1	0.247	98.4	0.911	Contact Map
2prsA	1	0.239	97.1	0.933	Contact Map
4cl2A	1	0.239	96.5	0.937	Contact Map
4xrvA	1	0.239	96.4	0.938	Contact Map
3ujpA	4	0.243	96.3	0.938	Contact Map
1toaA	1	0.243	96.1	0.94	Contact Map
3mfqA	1	0.239	96.1	0.94	Contact Map
4utoA	1	0.243	95.5	0.942	Contact Map
4oxrA	2	0.239	95.3	0.943	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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