GMHA - ECOLI - GREMLIN Contacts

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GMHA - Phosphoheptose isomerase

UniProt:	P63224	Sequences: MYQDLIRNELNEAAETLANFLKDDANIHAIQRAAVLLADSFKAGGKVLSCGNGGSHCDAMHFAEELTGRYRENRPGYPAIAISDVSHISCVGNDFGFNDIFSRYVEAVGREGDVLLGISTSGNSANVIKAIAAAREKGMKVITLTGKDGGKMAGTADIEIRVPHFGYADRIQEIHIKVIHILIQLIEKEMVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13146
Length:	192 (178)
Sequences:	2122 (1612)
Seq/√Len:	120.9

ECOLI - GMHA DIAA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
109_G	139_M	4.354	1.00
50_C	115_L	4.007	1.00
143_T	156_A	3.532	1.00
131_I	152_M	3.456	1.00
13_A	17_L	2.959	1.00
40_S	114_V	2.869	1.00
129_K	132_A	2.854	1.00
131_I	141_V	2.749	1.00
33_A	142_I	2.496	1.00
40_S	45_G	2.487	1.00
62_F	179_I	2.446	1.00
123_N	151_K	2.334	1.00
135_R	157_D	2.285	1.00
45_G	112_G	2.012	1.00
73_N	95_F	1.992	1.00
34_A	185_L	1.935	1.00
117_G	131_I	1.922	1.00
49_S	62_F	1.859	1.00
48_L	105_V	1.845	1.00
67_T	87_H	1.807	1.00
76_G	107_A	1.772	1.00
49_S	116_L	1.760	1.00
33_A	158_I	1.731	1.00
50_C	127_V	1.675	1.00
133_A	137_K	1.663	1.00
146_G	171_I	1.646	1.00
30_I	178_V	1.611	1.00
162_V	174_I	1.576	1.00
133_A	136_E	1.571	1.00
119_S	152_M	1.559	1.00
41_F	47_V	1.539	1.00
87_H	91_V	1.527	1.00
49_S	179_I	1.509	1.00
36_L	158_I	1.491	1.00
115_L	139_M	1.486	1.00
144_L	178_V	1.477	1.00
66_L	186_I	1.462	1.00
98_N	125_A	1.436	1.00
36_L	140_K	1.425	1.00
99_D	129_K	1.417	1.00
45_G	110_R	1.405	1.00
92_G	97_F	1.399	1.00
76_G	106_E	1.394	1.00
18_A	22_K	1.369	1.00
68_G	91_V	1.364	1.00
71_R	166_G	1.351	1.00
15_E	18_A	1.331	1.00
145_T	161_R	1.318	1.00
148_D	161_R	1.314	1.00
118_I	144_L	1.293	1.00
117_G	127_V	1.278	1.00
37_L	114_V	1.253	0.99
132_A	155_T	1.251	0.99
15_E	19_N	1.248	0.99
31_Q	35_V	1.245	0.99
9_E	184_Q	1.241	0.99
176_I	179_I	1.240	0.99
49_S	63_A	1.239	0.99
147_K	165_F	1.237	0.99
153_A	161_R	1.237	0.99
145_T	159_E	1.210	0.99
50_C	130_A	1.207	0.99
170_R	173_E	1.205	0.99
151_K	154_G	1.194	0.99
37_L	47_V	1.178	0.99
52_N	126_N	1.166	0.99
166_G	169_D	1.160	0.99
83_S	86_S	1.151	0.99
14_A	18_A	1.150	0.99
80_I	108_V	1.125	0.99
38_A	189_E	1.121	0.99
102_S	133_A	1.121	0.99
125_A	129_K	1.117	0.99
62_F	66_L	1.100	0.99
120_T	168_A	1.088	0.99
47_V	116_L	1.085	0.98
11_N	15_E	1.084	0.98
110_R	137_K	1.084	0.98
123_N	150_G	1.070	0.98
61_H	65_E	1.055	0.98
68_G	90_C	1.054	0.98
60_M	83_S	1.048	0.98
71_R	169_D	1.044	0.98
49_S	59_A	1.040	0.98
46_K	78_P	1.039	0.98
150_G	153_A	1.034	0.98
39_D	43_A	1.033	0.98
12_E	15_E	1.026	0.98
48_L	139_M	1.025	0.98
20_F	174_I	1.024	0.98
103_R	106_E	1.021	0.98
96_G	99_D	1.020	0.98
20_F	26_N	1.016	0.98
125_A	151_K	1.013	0.98
50_C	117_G	1.012	0.98
109_G	115_L	1.011	0.98
14_A	17_L	1.006	0.98
143_T	152_M	0.996	0.97
60_M	85_V	0.990	0.97
106_E	133_A	0.982	0.97
135_R	141_V	0.981	0.97
117_G	141_V	0.978	0.97
160_I	178_V	0.975	0.97
88_I	100_I	0.963	0.97
144_L	175_H	0.961	0.97
181_I	185_L	0.957	0.97
49_S	79_A	0.948	0.96
177_K	181_I	0.947	0.96
17_L	174_I	0.946	0.96
67_T	107_A	0.942	0.96
28_H	32_R	0.935	0.96
34_A	182_L	0.932	0.96
41_F	78_P	0.922	0.96
99_D	106_E	0.913	0.96
65_E	172_Q	0.905	0.95
147_K	161_R	0.905	0.95
37_L	182_L	0.899	0.95
115_L	130_A	0.894	0.95
97_F	100_I	0.876	0.94
48_L	109_G	0.875	0.94
37_L	116_L	0.873	0.94
77_Y	186_I	0.872	0.94
128_I	151_K	0.869	0.94
11_N	18_A	0.866	0.94
58_D	65_E	0.864	0.94
132_A	136_E	0.857	0.94
48_L	80_I	0.854	0.94
38_A	186_I	0.854	0.94
37_L	142_I	0.850	0.94
34_A	186_I	0.849	0.94
105_V	130_A	0.840	0.93
13_A	174_I	0.837	0.93
36_L	114_V	0.831	0.93
82_I	104_Y	0.826	0.93
184_Q	188_K	0.824	0.92
36_L	40_S	0.819	0.92
111_E	138_G	0.807	0.92
102_S	129_K	0.804	0.92
37_L	186_I	0.801	0.91
29_A	32_R	0.800	0.91
120_T	172_Q	0.787	0.91
17_L	20_F	0.784	0.91
132_A	151_K	0.780	0.90
39_D	140_K	0.775	0.90
164_H	171_I	0.769	0.90
87_H	104_Y	0.768	0.90
78_P	110_R	0.758	0.89
91_V	99_D	0.756	0.89
61_H	93_N	0.756	0.89
169_D	183_I	0.754	0.89
42_K	189_E	0.753	0.89
65_E	168_A	0.753	0.89
156_A	159_E	0.752	0.89
93_N	121_S	0.748	0.88
12_E	166_G	0.746	0.88
68_G	103_R	0.745	0.88
41_F	77_Y	0.742	0.88
105_V	115_L	0.740	0.88
162_V	178_V	0.740	0.88
145_T	152_M	0.733	0.87
170_R	177_K	0.732	0.87
105_V	133_A	0.732	0.87
101_F	104_Y	0.731	0.87
40_S	140_K	0.731	0.87
61_H	180_H	0.730	0.87
64_E	68_G	0.720	0.86
85_V	90_C	0.719	0.86
33_A	182_L	0.717	0.86
26_N	160_I	0.707	0.85
63_A	81_A	0.700	0.85
19_N	22_K	0.698	0.85
92_G	100_I	0.691	0.84
63_A	79_A	0.690	0.84
92_G	96_G	0.689	0.84
26_N	29_A	0.685	0.84
58_D	120_T	0.683	0.83
36_L	39_D	0.674	0.83
121_S	124_S	0.673	0.82
57_C	86_S	0.671	0.82
131_I	156_A	0.670	0.82
153_A	159_E	0.670	0.82
54_G	93_N	0.667	0.82
56_H	89_S	0.663	0.82
60_M	64_E	0.661	0.81
44_G	110_R	0.659	0.81
71_R	184_Q	0.659	0.81
41_F	108_V	0.658	0.81
93_N	120_T	0.650	0.80
35_V	38_A	0.648	0.80
148_D	165_F	0.648	0.80
69_R	95_F	0.647	0.80
102_S	106_E	0.642	0.79
58_D	172_Q	0.641	0.79
65_E	120_T	0.639	0.79
35_V	189_E	0.637	0.79
128_I	132_A	0.635	0.79
32_R	36_L	0.626	0.78
140_K	158_I	0.626	0.78
121_S	172_Q	0.624	0.77
162_V	175_H	0.623	0.77
52_N	94_D	0.620	0.77
30_I	182_L	0.619	0.77
62_F	118_I	0.613	0.76
98_N	129_K	0.613	0.76
64_E	90_C	0.609	0.76
99_D	102_S	0.606	0.75
91_V	104_Y	0.605	0.75
58_D	176_I	0.601	0.75
47_V	79_A	0.594	0.74
84_D	104_Y	0.591	0.74
147_K	150_G	0.588	0.73
66_L	70_Y	0.587	0.73
143_T	159_E	0.585	0.73
13_A	16_T	0.585	0.73
36_L	142_I	0.585	0.73
54_G	124_S	0.578	0.72
56_H	104_Y	0.575	0.72
145_T	153_A	0.574	0.71
78_P	108_V	0.573	0.71
38_A	42_K	0.568	0.71
141_V	156_A	0.566	0.70
52_N	93_N	0.564	0.70
10_L	181_I	0.562	0.70
69_R	73_N	0.561	0.70
64_E	183_I	0.560	0.70
62_F	176_I	0.560	0.70
54_G	120_T	0.559	0.69
9_E	13_A	0.555	0.69
57_C	60_M	0.555	0.69
90_C	96_G	0.555	0.69
105_V	109_G	0.553	0.69
62_F	116_L	0.552	0.69
58_D	168_A	0.549	0.68
183_I	187_E	0.545	0.68
32_R	35_V	0.544	0.67
75_P	106_E	0.543	0.67
70_Y	169_D	0.541	0.67
93_N	124_S	0.538	0.67
52_N	119_S	0.535	0.66
66_L	77_Y	0.533	0.66
134_A	139_M	0.533	0.66
58_D	117_G	0.533	0.66
55_S	124_S	0.528	0.65
61_H	94_D	0.528	0.65
39_D	42_K	0.527	0.65
125_A	132_A	0.525	0.65
29_A	158_I	0.523	0.64
109_G	112_G	0.522	0.64
114_V	142_I	0.522	0.64
52_N	121_S	0.521	0.64
77_Y	187_E	0.519	0.64
48_L	108_V	0.518	0.64
119_S	143_T	0.517	0.64
128_I	155_T	0.515	0.63
60_M	84_D	0.512	0.63
32_R	158_I	0.511	0.63
37_L	49_S	0.511	0.63
57_C	64_E	0.510	0.62
63_A	67_T	0.509	0.62
60_M	86_S	0.507	0.62
150_G	161_R	0.504	0.62
70_Y	74_R	0.504	0.62
115_L	131_I	0.503	0.61
93_N	126_N	0.501	0.61
46_K	110_R	0.501	0.61
55_S	121_S	0.501	0.61
60_M	81_A	0.500	0.61

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
2i2wA	4	0.9948	100	0.432	Contact Map
2yvaA	4	0.9792	100	0.477	Contact Map
1x92A	4	0.9844	100	0.482	Contact Map
3trjA	4	0.9688	100	0.485	Contact Map
2xblA	4	0.9948	100	0.487	Contact Map
1tk9A	4	0.9688	100	0.491	Contact Map
3w0lB	1	0.9844	99.9	0.636	Contact Map
3cvjA	2	0.9635	99.9	0.642	Contact Map
4s12A	2	0.9896	99.9	0.642	Contact Map
1nriA	2	0.9896	99.9	0.645	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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