YODS - BACSU - GREMLIN Contacts

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YODS - Probable coenzyme A transferase subunit alpha

UniProt:	O34317	Sequences: MAPFQKAISIDTAIADVRDGSVLMFGGFGGVGSPPSLIEAILDSGVTDLTVICNDAGFPDIGIGPLIVNQRVKTLIASHIGSNPVAGKQMTEGTLEVQFSPQGTLAERIRAGGAGLGGILTDVGIDNQMVCEKKDIVTVAGKRYLIEEALTADFAFINAYIADEFGNLTYDKTARNMNPLMAMAARRTFAEAERIVPMGEISEEMIVTPGVFVEGVVRSEGVKWKWAWE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	229 (218)
Sequences:	3513 (1823)
Seq/√Len:	123.5

ECOLI - ATOD YDIF
BACSU - YODS SCOA
HALSA - Q9HHP2
SULSO - Q97Z52

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
164_E	197_P	3.465	1.00
122_D	142_K	3.324	1.00
159_A	168_L	3.305	1.00
138_T	143_R	3.165	1.00
18_R	21_S	3.095	1.00
19_D	47_T	2.709	1.00
161_I	194_R	2.653	1.00
170_Y	208_T	2.641	1.00
168_L	190_A	2.639	1.00
48_D	73_K	2.617	1.00
85_V	88_K	2.448	1.00
201_I	206_I	2.393	1.00
140_A	148_E	2.386	1.00
73_K	96_E	2.276	1.00
88_K	92_E	2.275	1.00
11_D	43_D	2.271	1.00
24_M	152_A	2.219	1.00
9_S	12_T	2.124	1.00
17_V	41_I	2.099	1.00
155_A	185_A	2.030	1.00
70_Q	89_Q	1.997	1.00
40_A	43_D	1.992	1.00
74_T	96_E	1.953	1.00
136_I	143_R	1.936	1.00
50_T	76_I	1.922	1.00
162_A	192_A	1.914	1.00
39_E	65_P	1.892	1.00
112_G	151_T	1.892	1.00
24_M	109_I	1.855	1.00
16_D	215_G	1.841	1.00
160_Y	171_D	1.811	1.00
37_L	156_F	1.806	1.00
89_Q	94_T	1.791	1.00
151_T	186_R	1.789	1.00
165_F	198_M	1.786	1.00
70_Q	94_T	1.741	1.00
162_A	190_A	1.737	1.00
187_R	215_G	1.727	1.00
118_G	146_I	1.646	1.00
164_E	198_M	1.632	1.00
202_S	205_M	1.631	1.00
125_I	143_R	1.624	1.00
60_D	68_V	1.608	1.00
52_I	150_L	1.604	1.00
8_I	215_G	1.592	1.00
42_L	71_R	1.583	1.00
20_G	48_D	1.547	1.00
21_S	154_F	1.542	1.00
24_M	181_M	1.537	1.00
12_T	15_A	1.532	1.00
41_I	156_F	1.510	1.00
161_I	169_T	1.507	1.00
163_D	167_N	1.459	1.00
66_L	71_R	1.455	1.00
50_T	74_T	1.442	1.00
111_A	119_I	1.411	1.00
98_Q	108_R	1.407	1.00
162_A	195_I	1.395	1.00
8_I	12_T	1.387	1.00
182_A	188_T	1.364	1.00
25_F	156_F	1.353	1.00
120_L	137_V	1.346	1.00
219_S	222_V	1.340	1.00
154_F	187_R	1.311	1.00
22_V	52_I	1.300	1.00
19_D	46_V	1.288	1.00
135_D	140_A	1.278	1.00
17_V	21_S	1.277	1.00
14_I	40_A	1.272	1.00
11_D	40_A	1.272	1.00
52_I	152_A	1.264	1.00
69_N	94_T	1.248	1.00
74_T	98_Q	1.242	0.99
197_P	200_E	1.219	0.99
33_S	38_I	1.217	0.99
161_I	196_V	1.211	0.99
117_G	139_V	1.205	0.99
42_L	68_V	1.201	0.99
10_I	40_A	1.170	0.99
109_I	181_M	1.161	0.99
17_V	154_F	1.160	0.99
100_S	108_R	1.158	0.99
50_T	73_K	1.157	0.99
40_A	44_S	1.157	0.99
172_K	204_E	1.148	0.99
107_E	110_R	1.142	0.99
104_T	121_T	1.142	0.99
117_G	149_A	1.129	0.99
116_L	119_I	1.124	0.99
14_I	17_V	1.117	0.99
25_F	38_I	1.114	0.99
36_S	191_E	1.110	0.99
51_V	72_V	1.091	0.99
138_T	141_G	1.091	0.99
108_R	149_A	1.091	0.99
67_I	89_Q	1.087	0.99
128_Q	132_E	1.078	0.99
42_L	69_N	1.074	0.98
18_R	154_F	1.069	0.98
189_F	217_V	1.069	0.98
157_I	181_M	1.067	0.98
157_I	190_A	1.065	0.98
42_L	65_P	1.060	0.98
159_A	192_A	1.058	0.98
36_S	219_S	1.042	0.98
14_I	44_S	1.039	0.98
45_G	71_R	1.034	0.98
13_A	217_V	1.024	0.98
195_I	218_R	1.023	0.98
172_K	193_E	1.021	0.98
16_D	187_R	1.013	0.98
194_R	218_R	1.002	0.98
39_E	43_D	1.001	0.98
190_A	208_T	1.000	0.98
56_A	86_A	0.997	0.98
183_M	212_F	0.997	0.98
56_A	75_L	0.992	0.97
111_A	116_L	0.989	0.97
162_A	168_L	0.988	0.97
13_A	189_F	0.985	0.97
46_V	71_R	0.974	0.97
109_I	184_A	0.967	0.97
160_Y	193_E	0.958	0.97
8_I	14_I	0.954	0.97
168_L	192_A	0.947	0.97
164_E	200_E	0.943	0.97
192_A	195_I	0.938	0.96
5_Q	8_I	0.938	0.96
156_F	189_F	0.936	0.96
162_A	216_V	0.933	0.96
17_V	189_F	0.922	0.96
157_I	182_A	0.916	0.96
108_R	148_E	0.916	0.96
77_A	80_I	0.912	0.96
158_N	222_V	0.912	0.96
24_M	150_L	0.910	0.96
21_S	153_D	0.907	0.96
120_L	146_I	0.900	0.96
68_V	85_V	0.889	0.95
85_V	89_Q	0.887	0.95
169_T	205_M	0.887	0.95
161_I	171_D	0.887	0.95
181_M	185_A	0.884	0.95
187_R	190_A	0.881	0.95
158_N	219_S	0.880	0.95
175_R	204_E	0.878	0.95
26_G	178_N	0.869	0.95
175_R	207_V	0.865	0.94
36_S	223_K	0.864	0.94
136_I	145_L	0.863	0.94
189_F	215_G	0.858	0.94
125_I	145_L	0.851	0.94
120_L	139_V	0.850	0.94
118_G	148_E	0.845	0.94
131_C	136_I	0.844	0.94
19_D	48_D	0.842	0.94
7_A	215_G	0.836	0.93
168_L	208_T	0.833	0.93
110_R	114_A	0.825	0.93
79_H	82_S	0.824	0.93
90_M	97_V	0.823	0.93
15_A	44_S	0.822	0.93
67_I	72_V	0.820	0.93
24_M	52_I	0.817	0.93
23_L	156_F	0.813	0.92
170_Y	179_P	0.806	0.92
188_T	214_E	0.789	0.91
139_V	146_I	0.788	0.91
22_V	152_A	0.784	0.91
112_G	150_L	0.784	0.91
19_D	45_G	0.781	0.91
109_I	152_A	0.774	0.90
117_G	144_Y	0.774	0.90
107_E	116_L	0.774	0.90
107_E	119_I	0.769	0.90
124_G	145_L	0.765	0.90
17_V	156_F	0.764	0.90
155_A	181_M	0.763	0.90
60_D	64_G	0.758	0.90
36_S	39_E	0.749	0.89
78_S	105_L	0.747	0.89
196_V	200_E	0.747	0.89
36_S	220_E	0.740	0.88
134_K	147_E	0.740	0.88
16_D	21_S	0.736	0.88
8_I	16_D	0.732	0.88
102_Q	106_A	0.730	0.88
172_K	202_S	0.726	0.87
139_V	148_E	0.723	0.87
152_A	185_A	0.722	0.87
118_G	149_A	0.719	0.87
113_G	183_M	0.715	0.87
191_E	219_S	0.705	0.86
169_T	201_I	0.704	0.86
13_A	16_D	0.704	0.86
80_I	86_A	0.703	0.86
179_P	183_M	0.701	0.86
118_G	137_V	0.700	0.85
66_L	72_V	0.699	0.85
56_A	82_S	0.699	0.85
47_T	71_R	0.696	0.85
157_I	208_T	0.691	0.85
158_N	191_E	0.688	0.84
53_C	63_I	0.684	0.84
196_V	199_G	0.680	0.84
182_A	208_T	0.677	0.84
41_I	71_R	0.676	0.83
59_P	64_G	0.673	0.83
11_D	15_A	0.672	0.83
204_E	207_V	0.670	0.83
169_T	206_I	0.669	0.83
6_K	216_V	0.669	0.83
153_D	186_R	0.667	0.83
58_F	61_I	0.667	0.83
13_A	44_S	0.666	0.83
179_P	208_T	0.665	0.82
5_Q	164_E	0.660	0.82
59_P	84_P	0.659	0.82
35_P	61_I	0.658	0.82
31_V	174_A	0.657	0.82
78_S	102_Q	0.652	0.81
140_A	151_T	0.651	0.81
194_R	200_E	0.645	0.80
25_F	53_C	0.643	0.80
100_S	133_K	0.641	0.80
135_D	138_T	0.640	0.80
22_V	50_T	0.640	0.80
13_A	17_V	0.637	0.80
220_E	223_K	0.637	0.80
108_R	150_L	0.636	0.80
74_T	133_K	0.636	0.80
14_I	37_L	0.635	0.79
58_F	64_G	0.628	0.79
37_L	217_V	0.628	0.79
13_A	215_G	0.625	0.78
160_Y	194_R	0.623	0.78
41_I	46_V	0.622	0.78
17_V	46_V	0.621	0.78
114_A	183_M	0.621	0.78
61_I	65_P	0.620	0.78
29_G	82_S	0.619	0.78
9_S	13_A	0.619	0.78
37_L	41_I	0.616	0.77
7_A	12_T	0.614	0.77
122_D	144_Y	0.613	0.77
32_G	170_Y	0.609	0.77
180_L	183_M	0.607	0.76
170_Y	207_V	0.606	0.76
30_G	58_F	0.605	0.76
16_D	189_F	0.602	0.76
51_V	56_A	0.601	0.76
52_I	109_I	0.600	0.76
54_N	177_M	0.600	0.76
134_K	145_L	0.597	0.75
146_I	149_A	0.597	0.75
160_Y	169_T	0.596	0.75
14_I	215_G	0.596	0.75
54_N	102_Q	0.595	0.75
34_P	37_L	0.593	0.75
26_G	176_N	0.593	0.75
172_K	192_A	0.590	0.74
10_I	219_S	0.590	0.74
36_S	222_V	0.589	0.74
42_L	45_G	0.581	0.73
137_V	146_I	0.579	0.73
89_Q	92_E	0.575	0.72
158_N	192_A	0.572	0.72
165_F	210_G	0.572	0.72
108_R	147_E	0.570	0.72
24_M	185_A	0.569	0.72
25_F	57_G	0.569	0.72
25_F	51_V	0.568	0.72
64_G	82_S	0.567	0.71
125_I	136_I	0.567	0.71
169_T	207_V	0.566	0.71
88_K	91_T	0.564	0.71
60_D	85_V	0.561	0.71
169_T	202_S	0.560	0.70
112_G	152_A	0.559	0.70
6_K	195_I	0.559	0.70
64_G	83_N	0.557	0.70
109_I	180_L	0.557	0.70
25_F	34_P	0.555	0.70
69_N	92_E	0.553	0.69
41_I	66_L	0.552	0.69
18_R	46_V	0.552	0.69
155_A	180_L	0.552	0.69
29_G	55_D	0.552	0.69
87_G	91_T	0.551	0.69
116_L	120_L	0.551	0.69
46_V	49_L	0.550	0.69
54_N	78_S	0.547	0.69
75_L	86_A	0.546	0.69
187_R	214_E	0.545	0.68
135_D	146_I	0.544	0.68
112_G	149_A	0.544	0.68
158_N	193_E	0.544	0.68
24_M	184_A	0.533	0.67
44_S	71_R	0.533	0.67
128_Q	131_C	0.531	0.66
161_I	205_M	0.526	0.66
6_K	9_S	0.525	0.66
26_G	34_P	0.525	0.66
106_A	177_M	0.524	0.65
87_G	90_M	0.524	0.65
33_S	82_S	0.521	0.65
35_P	219_S	0.520	0.65
28_F	54_N	0.517	0.64
175_R	179_P	0.517	0.64
80_I	90_M	0.516	0.64
55_D	81_G	0.512	0.64
40_A	46_V	0.511	0.63
76_I	98_Q	0.509	0.63
107_E	114_A	0.508	0.63
72_V	86_A	0.506	0.63
67_I	85_V	0.505	0.63
105_L	109_I	0.505	0.63
103_G	127_N	0.504	0.62
29_G	83_N	0.503	0.62
33_S	193_E	0.502	0.62
75_L	95_L	0.502	0.62
116_L	144_Y	0.501	0.62
154_F	189_F	0.501	0.62
55_D	63_I	0.501	0.62
35_P	42_L	0.500	0.62
76_I	150_L	0.500	0.62
157_I	188_T	0.500	0.62

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
1poiA	3	0.9651	100	0.251	Contact Map
4kgbA	2	0.9825	100	0.277	Contact Map
3k6mA	2	0.9869	100	0.279	Contact Map
3cdkA	2	0.9782	100	0.28	Contact Map
3rrlA	2	0.9869	100	0.288	Contact Map
1k6dA	2	0.9563	100	0.295	Contact Map
2ahuA	3	1	100	0.31	Contact Map
2hj0A	2	0.821	100	0.546	Contact Map
1xr4A	2	0.8122	100	0.548	Contact Map
3qliA	2	0.8384	100	0.55	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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