YHAM - BACSU - GREMLIN Contacts

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

YHAM - 3'-5' exoribonuclease YhaM

UniProt:	O07521	Sequences: MAKGIMLHEVGEQVDQYLLIKSSTKGIASNGKPFLTLMLQDQSGDIEAKLWDAKQSDEVTYAPQTIVKVVGDVHHYRGRTQLKLRNIRPVSEQENVNIDDFLETAPIPKNEMMDTITQYIFEMKNPNIQRITRFLVKKHEAEFMDYPAATKNHHEFVSGLAYHVVSMLNLAKAIADLYPSLDRDLLYAGVILHDLGKVKELSGPVSTSYTVEGNLLGHISIMVTELSKAAEELQIDSEEVLILQHLILSHHGKAEWGSPKPPMVKEAEILHYIDNLDAKMNMMDRALERVKPGEYTERVFALENRSFYKPTFHK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	314 (303)
Sequences:	959 (719)
Seq/√Len:	41.3

BACSU - YHAM

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
246_L	270_L	4.399	1.00
115_T	169_N	4.266	1.00
181_L	269_I	3.994	1.00
167_M	273_I	3.499	1.00
186_L	270_L	3.208	1.00
167_M	190_V	3.157	1.00
112_M	165_V	3.028	1.00
228_K	231_E	2.884	1.00
201_L	209_Y	2.845	1.00
134_F	229_A	2.842	1.00
122_E	172_K	2.827	1.00
143_F	164_V	2.708	1.00
166_S	277_D	2.705	1.00
170_L	174_I	2.694	1.00
230_A	240_V	2.693	1.00
226_L	247_I	2.676	1.00
202_S	210_T	2.654	1.00
120_I	136_V	2.649	1.00
122_E	183_R	2.558	1.00
119_Y	168_L	2.489	1.00
265_K	280_M	2.419	1.00
168_L	187_Y	2.414	1.00
171_A	190_V	2.386	1.00
174_I	276_L	2.384	1.00
123_M	132_T	2.380	1.00
125_N	239_E	2.374	1.00
224_T	244_Q	2.336	1.00
65_T	89_P	2.244	1.00
15_D	68_K	2.212	1.00
129_Q	133_R	2.196	1.00
265_K	283_M	2.171	0.99
71_G	82_L	2.114	0.99
15_D	70_V	2.089	0.99
108_P	111_E	2.085	0.99
298_R	303_E	2.084	0.99
189_G	246_L	2.075	0.99
168_L	191_I	2.071	0.99
219_I	259_P	2.046	0.99
219_I	258_S	2.027	0.99
88_R	94_E	2.022	0.99
97_N	100_D	2.007	0.99
113_M	144_M	1.964	0.99
185_L	243_L	1.899	0.99
199_K	212_E	1.891	0.99
116_I	161_A	1.883	0.99
212_E	241_L	1.879	0.98
196_G	221_I	1.857	0.98
20_I	61_Y	1.828	0.98
254_A	261_P	1.821	0.98
275_N	279_K	1.802	0.98
214_N	306_S	1.776	0.98
156_F	281_N	1.758	0.98
166_S	177_L	1.733	0.97
17_Y	88_R	1.717	0.97
172_K	183_R	1.688	0.97
225_E	228_K	1.668	0.97
227_S	244_Q	1.643	0.96
138_K	229_A	1.618	0.96
176_D	183_R	1.610	0.96
17_Y	90_V	1.599	0.96
115_T	165_V	1.574	0.95
223_V	244_Q	1.531	0.95
69_V	87_I	1.519	0.94
276_L	280_M	1.514	0.94
107_I	112_M	1.469	0.93
186_L	246_L	1.445	0.93
128_I	239_E	1.418	0.92
131_I	240_V	1.397	0.91
9_E	12_E	1.390	0.91
164_V	191_I	1.383	0.91
41_D	44_G	1.360	0.90
139_H	142_E	1.359	0.90
152_N	301_A	1.350	0.90
134_F	138_K	1.345	0.90
201_L	210_T	1.337	0.90
132_T	188_A	1.335	0.90
178_Y	277_D	1.333	0.89
283_M	307_F	1.330	0.89
127_N	235_I	1.326	0.89
253_K	261_P	1.322	0.89
180_S	284_D	1.320	0.89
240_V	244_Q	1.315	0.89
46_I	71_G	1.312	0.89
265_K	284_D	1.304	0.88
168_L	190_V	1.299	0.88
121_F	129_Q	1.298	0.88
183_R	187_Y	1.296	0.88
242_I	246_L	1.291	0.88
121_F	133_R	1.285	0.88
175_A	183_R	1.274	0.87
199_K	225_E	1.273	0.87
123_M	184_D	1.264	0.87
164_V	168_L	1.262	0.87
189_G	243_L	1.257	0.86
190_V	273_I	1.244	0.86
185_L	264_V	1.240	0.86
134_F	232_E	1.235	0.85
127_N	239_E	1.232	0.85
36_T	49_K	1.230	0.85
200_E	209_Y	1.222	0.85
156_F	162_Y	1.212	0.84
203_G	207_T	1.204	0.84
282_M	301_A	1.204	0.84
200_E	217_G	1.184	0.83
132_T	136_V	1.176	0.83
39_L	69_V	1.174	0.82
116_I	168_L	1.173	0.82
67_V	87_I	1.173	0.82
195_L	222_M	1.165	0.82
199_K	228_K	1.150	0.81
128_I	188_A	1.147	0.81
170_L	273_I	1.144	0.81
4_G	7_L	1.143	0.81
51_W	81_Q	1.142	0.81
17_Y	68_K	1.140	0.80
14_V	82_L	1.139	0.80
135_L	229_A	1.138	0.80
164_V	198_V	1.131	0.80
74_H	83_K	1.120	0.79
131_I	243_L	1.114	0.79
242_I	264_V	1.109	0.79
133_R	137_K	1.100	0.78
91_S	94_E	1.098	0.78
211_V	295_Y	1.076	0.76
152_N	282_M	1.076	0.76
119_Y	172_K	1.072	0.76
39_L	48_A	1.062	0.76
174_I	269_I	1.061	0.75
286_A	299_V	1.059	0.75
269_I	280_M	1.058	0.75
5_I	46_I	1.056	0.75
210_T	213_G	1.052	0.75
246_L	249_S	1.049	0.75
181_L	265_K	1.048	0.75
25_K	33_P	1.047	0.74
35_L	53_A	1.046	0.74
26_G	36_T	1.045	0.74
196_G	201_L	1.042	0.74
190_V	270_L	1.040	0.74
211_V	241_L	1.040	0.74
98_I	101_F	1.038	0.74
14_V	18_L	1.034	0.74
272_Y	279_K	1.033	0.73
106_P	288_E	1.022	0.73
112_M	161_A	1.018	0.72
295_Y	298_R	1.003	0.71
198_V	232_E	0.996	0.71
110_N	144_M	0.996	0.71
163_H	193_H	0.994	0.71
5_I	43_S	0.993	0.70
269_I	276_L	0.993	0.70
194_D	218_H	0.986	0.70
120_I	191_I	0.985	0.70
209_Y	256_W	0.978	0.69
35_L	50_L	0.977	0.69
250_H	274_D	0.973	0.69
61_Y	67_V	0.971	0.69
102_L	157_V	0.968	0.68
220_S	248_L	0.966	0.68
105_A	162_Y	0.959	0.68
126_P	129_Q	0.958	0.68
163_H	218_H	0.952	0.67
298_R	301_A	0.951	0.67
128_I	247_I	0.949	0.67
138_K	225_E	0.944	0.67
226_L	230_A	0.929	0.65
127_N	236_D	0.929	0.65
117_T	133_R	0.928	0.65
136_V	191_I	0.925	0.65
66_I	101_F	0.922	0.65
194_D	274_D	0.915	0.64
172_K	187_Y	0.914	0.64
75_H	78_G	0.903	0.63
268_E	279_K	0.892	0.62
224_T	227_S	0.890	0.62
256_W	279_K	0.888	0.62
238_E	293_G	0.883	0.61
171_A	273_I	0.869	0.60
173_A	176_D	0.866	0.60
68_K	88_R	0.856	0.59
216_L	241_L	0.853	0.59
112_M	115_T	0.853	0.59
220_S	224_T	0.848	0.58
36_T	47_E	0.845	0.58
230_A	235_I	0.838	0.57
163_H	194_D	0.836	0.57
169_N	280_M	0.834	0.57
128_I	243_L	0.830	0.57
43_S	80_T	0.829	0.56
189_G	249_S	0.828	0.56
112_M	162_Y	0.828	0.56
153_H	197_K	0.825	0.56
51_W	262_P	0.824	0.56
254_A	260_K	0.822	0.56
245_H	249_S	0.821	0.56
66_I	98_I	0.820	0.56
141_A	145_D	0.819	0.56
193_H	274_D	0.816	0.55
295_Y	300_F	0.813	0.55
254_A	259_P	0.812	0.55
111_E	294_E	0.812	0.55
173_A	177_L	0.812	0.55
296_T	299_V	0.810	0.55
192_L	225_E	0.810	0.55
290_V	296_T	0.809	0.55
226_L	231_E	0.808	0.54
119_Y	187_Y	0.807	0.54
135_L	192_L	0.806	0.54
130_R	133_R	0.803	0.54
13_Q	72_D	0.802	0.54
180_S	265_K	0.800	0.54
8_H	73_V	0.797	0.53
44_G	71_G	0.797	0.53
302_L	307_F	0.795	0.53
28_A	31_G	0.792	0.53
132_T	168_L	0.790	0.53
69_V	84_L	0.789	0.53
106_P	162_Y	0.785	0.52
219_I	247_I	0.783	0.52
27_I	33_P	0.781	0.52
163_H	274_D	0.781	0.52
69_V	73_V	0.779	0.52
286_A	296_T	0.773	0.51
55_Q	273_I	0.773	0.51
175_A	181_L	0.772	0.51
17_Y	286_A	0.770	0.51
223_V	271_H	0.768	0.51
174_I	273_I	0.767	0.51
47_E	149_A	0.765	0.50
125_N	128_I	0.764	0.50
48_A	84_L	0.762	0.50
167_M	268_E	0.762	0.50
236_D	240_V	0.761	0.50
170_L	177_L	0.760	0.50
149_A	251_H	0.760	0.50
216_L	249_S	0.757	0.50
228_K	232_E	0.754	0.49
18_L	39_L	0.752	0.49
123_M	188_A	0.750	0.49
107_I	162_Y	0.749	0.49
164_V	190_V	0.749	0.49
281_N	285_R	0.749	0.49
146_Y	203_G	0.747	0.49
100_D	175_A	0.746	0.49
218_H	274_D	0.744	0.49
197_K	274_D	0.742	0.48
105_A	109_K	0.740	0.48
113_M	117_T	0.737	0.48
193_H	218_H	0.736	0.48
149_A	274_D	0.731	0.47
34_F	115_T	0.730	0.47
127_N	233_L	0.730	0.47
223_V	248_L	0.728	0.47
251_H	274_D	0.726	0.47
220_S	223_V	0.726	0.47
34_F	92_E	0.724	0.47
117_T	124_K	0.721	0.46
23_S	37_L	0.721	0.46
121_F	130_R	0.719	0.46
102_L	208_S	0.719	0.46
50_L	87_I	0.716	0.46
114_D	118_Q	0.715	0.46
21_K	182_D	0.715	0.46
213_G	258_S	0.713	0.46
115_T	118_Q	0.712	0.46
23_S	65_T	0.711	0.45
154_H	257_G	0.711	0.45
178_Y	200_E	0.708	0.45
63_P	232_E	0.707	0.45
116_I	191_I	0.705	0.45
5_I	18_L	0.704	0.45
299_V	302_L	0.703	0.45
238_E	308_Y	0.702	0.45
194_D	197_K	0.699	0.44
135_L	225_E	0.699	0.44
202_S	208_S	0.698	0.44
22_S	85_R	0.691	0.44
272_Y	275_N	0.688	0.43
162_Y	166_S	0.685	0.43
164_V	273_I	0.684	0.43
132_T	192_L	0.683	0.43
250_H	257_G	0.680	0.43
229_A	237_S	0.679	0.43
212_E	291_K	0.677	0.42
50_L	125_N	0.676	0.42
153_H	163_H	0.674	0.42
61_Y	89_P	0.673	0.42
197_K	218_H	0.673	0.42
156_F	177_L	0.670	0.42
12_E	288_E	0.670	0.42
40_Q	45_D	0.669	0.42
57_D	83_K	0.669	0.42
151_K	268_E	0.662	0.41
136_V	143_F	0.659	0.41
131_I	236_D	0.655	0.40
186_L	242_I	0.654	0.40
33_P	55_Q	0.653	0.40
282_M	302_L	0.649	0.40
8_H	16_Q	0.648	0.40
253_K	275_N	0.646	0.40
126_P	130_R	0.645	0.39
30_N	49_K	0.645	0.39
72_D	85_R	0.644	0.39
29_S	77_R	0.643	0.39
35_L	305_R	0.643	0.39
135_L	198_V	0.641	0.39
204_P	207_T	0.640	0.39
291_K	294_E	0.637	0.39
101_F	158_S	0.635	0.39
115_T	119_Y	0.635	0.39
17_Y	94_E	0.635	0.39
154_H	213_G	0.635	0.39
19_L	90_V	0.631	0.38
153_H	218_H	0.631	0.38
107_I	111_E	0.630	0.38
39_L	279_K	0.629	0.38
109_K	158_S	0.629	0.38
245_H	267_A	0.628	0.38
199_K	221_I	0.628	0.38
297_E	306_S	0.628	0.38
212_E	237_S	0.626	0.38
18_L	44_G	0.625	0.38
37_L	84_L	0.625	0.38
153_H	194_D	0.622	0.37
181_L	264_V	0.621	0.37
269_I	305_R	0.620	0.37
256_W	271_H	0.620	0.37
297_E	307_F	0.619	0.37
254_A	258_S	0.618	0.37
132_T	167_M	0.617	0.37
60_T	92_E	0.616	0.37
78_G	281_N	0.614	0.37
150_T	208_S	0.612	0.37
56_S	59_V	0.612	0.37
142_E	199_K	0.609	0.36
268_E	283_M	0.608	0.36
248_L	260_K	0.608	0.36
237_S	240_V	0.607	0.36
216_L	221_I	0.607	0.36
116_I	144_M	0.606	0.36
166_S	178_Y	0.606	0.36
23_S	62_A	0.605	0.36
135_L	195_L	0.605	0.36
139_H	225_E	0.601	0.36
251_H	257_G	0.600	0.36
131_I	165_V	0.598	0.35
63_P	141_A	0.597	0.35
130_R	233_L	0.596	0.35
28_A	32_K	0.593	0.35
113_M	161_A	0.590	0.35
236_D	239_E	0.590	0.35
6_M	43_S	0.587	0.34
12_E	179_P	0.587	0.34
73_V	80_T	0.586	0.34
46_I	102_L	0.585	0.34
70_V	82_L	0.585	0.34
154_H	218_H	0.584	0.34
29_S	82_L	0.584	0.34
68_K	94_E	0.583	0.34
157_V	207_T	0.582	0.34
159_G	193_H	0.582	0.34
261_P	303_E	0.581	0.34
135_L	138_K	0.581	0.34
123_M	187_Y	0.580	0.34
35_L	64_Q	0.579	0.34
232_E	308_Y	0.575	0.33
27_I	30_N	0.575	0.33
160_L	197_K	0.573	0.33
66_I	100_D	0.570	0.33
45_D	276_L	0.570	0.33
287_L	290_V	0.570	0.33
100_D	278_A	0.569	0.33
64_Q	174_I	0.569	0.33
42_Q	104_T	0.568	0.33
21_K	52_D	0.567	0.33
256_W	261_P	0.567	0.33
159_G	163_H	0.566	0.33
11_G	269_I	0.566	0.33
142_E	198_V	0.564	0.33
66_I	205_V	0.564	0.33
48_A	278_A	0.562	0.32
118_Q	141_A	0.562	0.32
114_D	117_T	0.559	0.32
276_L	291_K	0.559	0.32
171_A	186_L	0.557	0.32
44_G	277_D	0.557	0.32
37_L	190_V	0.556	0.32
76_Y	198_V	0.556	0.32
124_K	184_D	0.555	0.32
190_V	282_M	0.553	0.32
144_M	161_A	0.552	0.32
174_I	198_V	0.550	0.31
275_N	278_A	0.550	0.31
201_L	256_W	0.549	0.31
237_S	293_G	0.549	0.31
252_G	261_P	0.546	0.31
45_D	289_R	0.546	0.31
200_E	250_H	0.544	0.31
252_G	275_N	0.544	0.31
101_F	264_V	0.542	0.31
169_N	176_D	0.542	0.31
151_K	288_E	0.542	0.31
50_L	57_D	0.541	0.31
172_K	176_D	0.540	0.31
68_K	90_V	0.540	0.31
208_S	214_N	0.539	0.31
154_H	277_D	0.539	0.31
116_I	119_Y	0.538	0.30
178_Y	209_Y	0.538	0.30
12_E	16_Q	0.537	0.30
21_K	87_I	0.535	0.30
273_I	276_L	0.534	0.30
159_G	197_K	0.533	0.30
109_K	113_M	0.533	0.30
22_S	63_P	0.533	0.30
260_K	282_M	0.532	0.30
159_G	194_D	0.532	0.30
227_S	240_V	0.531	0.30
39_L	84_L	0.531	0.30
194_D	250_H	0.530	0.30
10_V	75_H	0.529	0.30
192_L	229_A	0.529	0.30
13_Q	27_I	0.527	0.30
13_Q	102_L	0.523	0.29
226_L	240_V	0.522	0.29
46_I	120_I	0.522	0.29
82_L	293_G	0.520	0.29
17_Y	67_V	0.520	0.29
81_Q	259_P	0.519	0.29
153_H	159_G	0.519	0.29
262_P	267_A	0.517	0.29
52_D	166_S	0.515	0.29
99_D	174_I	0.515	0.29
142_E	206_S	0.515	0.29
80_T	278_A	0.514	0.29
34_F	120_I	0.513	0.29
228_K	240_V	0.512	0.28
66_I	263_M	0.511	0.28
158_S	164_V	0.511	0.28
19_L	148_A	0.511	0.28
196_G	252_G	0.510	0.28
128_I	184_D	0.508	0.28
23_S	35_L	0.508	0.28
200_E	213_G	0.507	0.28
71_G	135_L	0.506	0.28
102_L	145_D	0.506	0.28
177_L	281_N	0.506	0.28
6_M	33_P	0.505	0.28
41_D	277_D	0.504	0.28
222_M	225_E	0.504	0.28
174_I	280_M	0.503	0.28
153_H	193_H	0.503	0.28
128_I	185_L	0.503	0.28
165_V	273_I	0.500	0.28

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
3kq5A	2	0.6656	100	0.736	Contact Map
3s4lA	1	0.5064	99.7	0.818	Contact Map
3wfpA	2	0.9013	99.7	0.823	Contact Map
3wfsC	1	0.9045	99.7	0.828	Contact Map
3wfrE	1	0.9108	99.7	0.828	Contact Map
2dqbA	4	0.6274	99.6	0.839	Contact Map
3gw7A	2	0.4522	99.6	0.843	Contact Map
2qgsA	2	0.4904	99.6	0.844	Contact Map
3wfoA	1	0.8567	99.5	0.845	Contact Map
2pjqA	2	0.4968	99.5	0.848	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 0.0099 seconds.