APT - ECOLI - GREMLIN Contacts

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APT - Adenine phosphoribosyltransferase

UniProt:	P69503	Sequences: MTATAQQLEYLKNSIKSIQDYPKPGILFRDVTSLLEDPKAYALSIDLLVERYKNAGITKVVGTEARGFLFGAPVALGLGVGFVPVRKPGKLPRETISETYDLEYGTDQLEIHVDAIKPGDKVLVVDDLLATGGTIEATVKLIRRLGGEVADAAFIINLFDLGGEQRLEKQGITSYSLVPFPGH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10051
Length:	183 (167)
Sequences:	4547 (2611)
Seq/√Len:	202.0

ECOLI - APT
BACSU - APT XPT PURR
HALSA - HPRL Q9HNG3
SULSO - Q980Q2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
121_K	148_E	3.288	1.00
94_E	113_V	2.689	1.00
159_F	179_P	2.673	1.00
59_K	120_D	2.650	1.00
98_E	140_K	2.564	1.00
17_S	27_L	2.539	1.00
162_G	165_Q	2.469	1.00
98_E	144_R	2.396	1.00
157_N	164_E	2.344	1.00
99_T	108_Q	2.331	1.00
164_E	168_E	2.282	1.00
58_T	120_D	2.206	1.00
46_D	77_G	2.197	1.00
16_K	93_R	2.143	1.00
101_D	106_T	2.104	1.00
142_I	147_G	2.078	1.00
135_I	154_F	2.003	1.00
51_R	175_Y	1.955	1.00
14_S	40_A	1.945	1.00
136_E	140_K	1.905	1.00
97_S	108_Q	1.885	1.00
42_A	77_G	1.881	1.00
17_S	29_R	1.831	1.00
136_E	166_R	1.814	1.00
49_V	77_G	1.799	1.00
117_K	120_D	1.785	1.00
61_V	85_V	1.785	1.00
50_E	53_K	1.744	1.00
85_V	138_T	1.720	1.00
96_I	145_L	1.717	1.00
57_I	80_V	1.716	1.00
56_G	121_K	1.691	1.00
97_S	110_E	1.684	1.00
63_T	138_T	1.675	1.00
143_R	170_Q	1.663	1.00
20_D	24_P	1.647	1.00
99_T	106_T	1.572	1.00
14_S	37_D	1.547	1.00
139_V	152_A	1.523	1.00
47_L	50_E	1.516	1.00
75_A	82_F	1.514	1.00
41_Y	72_A	1.487	1.00
61_V	142_I	1.469	1.00
118_P	146_G	1.463	1.00
121_K	150_A	1.457	1.00
42_A	76_L	1.454	1.00
55_A	173_T	1.441	1.00
96_I	113_V	1.402	1.00
135_I	152_A	1.374	1.00
48_L	153_A	1.369	1.00
59_K	83_V	1.353	1.00
32_T	112_H	1.350	1.00
52_Y	153_A	1.335	1.00
19_Q	27_L	1.320	1.00
39_K	79_G	1.301	1.00
125_V	153_A	1.289	1.00
165_Q	168_E	1.286	1.00
93_R	112_H	1.259	1.00
48_L	74_V	1.237	1.00
52_Y	151_D	1.235	1.00
52_Y	123_L	1.233	1.00
116_I	147_G	1.231	1.00
62_G	82_F	1.220	1.00
128_L	156_I	1.216	1.00
71_G	82_F	1.213	1.00
165_Q	169_K	1.173	1.00
29_R	160_D	1.158	1.00
46_D	76_L	1.145	1.00
15_I	178_V	1.144	1.00
88_P	108_Q	1.138	1.00
124_V	138_T	1.138	1.00
88_P	107_D	1.136	1.00
42_A	46_D	1.123	1.00
49_V	74_V	1.122	1.00
42_A	79_G	1.114	1.00
43_L	46_D	1.113	1.00
49_V	78_L	1.110	1.00
60_V	80_V	1.103	1.00
57_I	123_L	1.089	1.00
116_I	142_I	1.073	1.00
102_L	105_G	1.071	1.00
140_K	143_R	1.071	1.00
142_I	149_V	1.069	1.00
56_G	80_V	1.068	1.00
44_S	155_I	1.063	1.00
59_K	81_G	1.047	1.00
139_V	143_R	1.043	1.00
57_I	78_L	1.032	1.00
123_L	151_D	1.028	1.00
51_R	151_D	1.027	1.00
52_Y	57_I	1.019	1.00
143_R	148_E	1.014	1.00
164_E	174_S	0.988	1.00
123_L	150_A	0.968	0.99
49_V	53_K	0.967	0.99
32_T	84_P	0.963	0.99
41_Y	73_P	0.953	0.99
45_I	74_V	0.936	0.99
72_A	82_F	0.930	0.99
124_V	135_I	0.930	0.99
47_L	51_R	0.924	0.99
119_G	148_E	0.918	0.99
70_F	155_I	0.916	0.99
58_T	119_G	0.913	0.99
11_L	43_L	0.913	0.99
11_L	47_L	0.909	0.99
139_V	149_V	0.900	0.99
96_I	144_R	0.897	0.99
61_V	138_T	0.873	0.99
59_K	116_I	0.864	0.99
176_S	179_P	0.863	0.99
73_P	76_L	0.855	0.99
69_L	84_P	0.853	0.99
157_N	179_P	0.844	0.99
74_V	125_V	0.841	0.99
61_V	111_I	0.832	0.98
63_T	109_L	0.831	0.98
157_N	163_G	0.819	0.98
41_Y	45_I	0.810	0.98
45_I	73_P	0.807	0.98
44_S	48_L	0.805	0.98
124_V	139_V	0.796	0.98
48_L	125_V	0.794	0.98
47_L	177_L	0.794	0.98
140_K	144_R	0.790	0.98
23_K	26_I	0.777	0.98
95_T	110_E	0.773	0.98
45_I	76_L	0.769	0.97
61_V	124_V	0.765	0.97
43_L	47_L	0.761	0.97
48_L	51_R	0.760	0.97
16_K	33_S	0.758	0.97
136_E	170_Q	0.755	0.97
34_L	44_S	0.754	0.97
124_V	152_A	0.748	0.97
57_I	60_V	0.744	0.97
159_F	162_G	0.742	0.97
18_I	93_R	0.738	0.97
129_L	154_F	0.738	0.97
47_L	175_Y	0.737	0.97
69_L	82_F	0.736	0.97
96_I	111_I	0.735	0.97
53_K	77_G	0.732	0.97
17_S	160_D	0.717	0.96
93_R	113_V	0.714	0.96
31_V	35_L	0.714	0.96
103_E	106_T	0.709	0.96
151_D	173_T	0.705	0.96
157_N	176_S	0.704	0.96
114_D	145_L	0.704	0.96
170_Q	173_T	0.691	0.95
33_S	36_E	0.687	0.95
11_L	178_V	0.687	0.95
32_T	155_I	0.683	0.95
40_A	43_L	0.683	0.95
52_Y	55_A	0.679	0.95
28_F	156_I	0.678	0.95
41_Y	69_L	0.678	0.95
22_P	25_G	0.673	0.95
58_T	80_V	0.672	0.94
23_K	107_D	0.667	0.94
122_V	142_I	0.666	0.94
14_S	18_I	0.661	0.94
88_P	110_E	0.661	0.94
88_P	97_S	0.661	0.94
54_N	57_I	0.659	0.94
18_I	112_H	0.656	0.94
159_F	164_E	0.653	0.94
128_L	158_L	0.650	0.93
139_V	170_Q	0.649	0.93
59_K	117_K	0.647	0.93
153_A	175_Y	0.645	0.93
39_K	43_L	0.645	0.93
27_L	160_D	0.645	0.93
55_A	121_K	0.641	0.93
33_S	128_L	0.640	0.93
41_Y	70_F	0.640	0.93
113_V	144_R	0.635	0.93
151_D	175_Y	0.635	0.93
51_R	153_A	0.633	0.93
61_V	116_I	0.630	0.92
38_P	76_L	0.629	0.92
45_I	77_G	0.627	0.92
52_Y	175_Y	0.626	0.92
69_L	72_A	0.624	0.92
129_L	163_G	0.624	0.92
12_K	17_S	0.623	0.92
133_G	166_R	0.622	0.92
94_E	114_D	0.621	0.92
57_I	151_D	0.614	0.91
140_K	170_Q	0.614	0.91
11_L	14_S	0.613	0.91
44_S	70_F	0.609	0.91
16_K	114_D	0.604	0.91
154_F	174_S	0.602	0.91
124_V	142_I	0.601	0.91
143_R	152_A	0.596	0.90
112_H	115_A	0.589	0.90
96_I	99_T	0.584	0.89
13_N	17_S	0.581	0.89
28_F	90_K	0.578	0.89
60_V	75_A	0.578	0.89
86_R	107_D	0.578	0.89
48_L	155_I	0.577	0.89
59_K	122_V	0.577	0.89
60_V	78_L	0.572	0.88
81_G	84_P	0.569	0.88
37_D	40_A	0.567	0.88
17_S	128_L	0.561	0.87
154_F	176_S	0.556	0.87
12_K	178_V	0.555	0.87
94_E	112_H	0.550	0.86
36_E	117_K	0.547	0.86
38_P	72_A	0.547	0.86
135_I	167_L	0.545	0.86
70_F	125_V	0.542	0.85
51_R	173_T	0.539	0.85
49_V	73_P	0.537	0.85
11_L	44_S	0.537	0.85
15_I	29_R	0.537	0.85
29_R	158_L	0.532	0.84
152_A	167_L	0.527	0.84
21_Y	26_I	0.527	0.84
52_Y	60_V	0.527	0.84
95_T	112_H	0.526	0.84
120_D	147_G	0.526	0.84
71_G	78_L	0.525	0.84
60_V	74_V	0.524	0.83
89_G	110_E	0.524	0.83
31_V	70_F	0.523	0.83
35_L	69_L	0.523	0.83
55_A	150_A	0.522	0.83
102_L	107_D	0.517	0.83
31_V	155_I	0.516	0.83
71_G	75_A	0.516	0.83
35_L	70_F	0.514	0.82
15_I	18_I	0.513	0.82
136_E	169_K	0.513	0.82
143_R	149_V	0.509	0.82
86_R	90_K	0.508	0.82
49_V	123_L	0.507	0.81
44_S	47_L	0.506	0.81
116_I	120_D	0.503	0.81
129_L	167_L	0.503	0.81
60_V	123_L	0.503	0.81
62_G	81_G	0.502	0.81
133_G	162_G	0.502	0.81
41_Y	125_V	0.501	0.81
93_R	114_D	0.501	0.81
57_I	121_K	0.500	0.81

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
4m0kA	2	0.9617	100	0.329	Contact Map
4lzaA	2	0.9399	100	0.336	Contact Map
2dy0A	2	0.9945	100	0.434	Contact Map
1qb7A	2	1	100	0.435	Contact Map
1zn8A	2	0.9617	100	0.477	Contact Map
1g2qA	2	0.9508	100	0.478	Contact Map
1l1qA	2	0.9727	100	0.478	Contact Map
1o57A	2	0.9399	100	0.544	Contact Map
1y0bA	2	0.9781	100	0.552	Contact Map
3qw4B	4	0.8907	100	0.555	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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