GPMB - ECOLI - GREMLIN Contacts

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GPMB - Probable phosphoglycerate mutase GpmB

UniProt:	P0A7A2	Sequences: MLQVYLVRHGETQWNAERRIQGQSDSPLTAKGEQQAMQVATRAKELGITHIISSDLGRTRRTAEIIAQACGCDIIFDSRLRELNMGVLEKRHIDSLTEEEENWRRQLVNGTVDGRIPEGESMQELSDRVNAALESCRDLPQGSRPLLVSHGIALGCLVSTILGLPAWAERRLRLRNCSISRVDYQESLWLASGWVVETAGDISHLDAPALDELQR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12164
Length:	215 (186)
Sequences:	14074 (9941)
Seq/√Len:	728.9

ECOLI - GPMB COBC GPMA SIXA
BACSU - PHOE
SULSO - Q97WI1 Q97YV8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
79_R	135_S	3.036	1.00
55_D	81_R	2.878	1.00
33_E	61_R	2.816	1.00
60_R	76_F	2.771	1.00
3_Q	181_R	2.724	1.00
87_V	118_E	2.706	1.00
3_Q	144_R	2.464	1.00
130_N	160_T	2.463	1.00
129_V	153_A	2.346	1.00
11_E	31_K	2.339	1.00
79_R	131_A	2.263	1.00
79_R	132_A	2.197	1.00
50_H	75_I	2.155	1.00
149_S	153_A	1.982	1.00
80_L	132_A	1.972	1.00
7_V	39_V	1.963	1.00
3_Q	183_D	1.930	1.00
27_P	61_R	1.927	1.00
37_M	65_I	1.926	1.00
11_E	29_T	1.823	1.00
61_R	64_E	1.812	1.00
33_E	65_I	1.799	1.00
91_R	99_E	1.795	1.00
23_Q	81_R	1.783	1.00
48_I	146_L	1.751	1.00
13_Q	29_T	1.750	1.00
27_P	57_G	1.704	1.00
51_I	67_A	1.693	1.00
115_R	124_E	1.689	1.00
5_Y	48_I	1.622	1.00
7_V	66_I	1.609	1.00
23_Q	84_N	1.582	1.00
60_R	64_E	1.581	1.00
51_I	63_A	1.577	1.00
49_T	143_S	1.571	1.00
53_S	76_F	1.563	1.00
77_D	135_S	1.563	1.00
77_D	132_A	1.557	1.00
149_S	154_L	1.555	1.00
7_V	146_L	1.554	1.00
121_S	124_E	1.529	1.00
120_E	128_R	1.528	1.00
41_T	69_A	1.518	1.00
34_Q	37_M	1.504	1.00
55_D	78_S	1.497	1.00
34_Q	38_Q	1.494	1.00
13_Q	17_E	1.476	1.00
5_Y	144_R	1.469	1.00
154_L	174_L	1.469	1.00
110_G	113_D	1.440	1.00
49_T	144_R	1.433	1.00
66_I	148_V	1.432	1.00
5_Y	181_R	1.407	1.00
30_A	33_E	1.405	1.00
130_N	134_E	1.377	1.00
31_K	35_Q	1.372	1.00
11_E	16_A	1.370	1.00
33_E	37_M	1.355	1.00
31_K	34_Q	1.330	1.00
36_A	62_T	1.312	1.00
129_V	157_L	1.304	1.00
14_W	26_S	1.302	1.00
52_I	132_A	1.292	1.00
92_H	95_S	1.286	1.00
123_Q	127_D	1.258	1.00
14_W	21_Q	1.249	1.00
100_E	103_W	1.216	1.00
50_H	143_S	1.214	1.00
91_R	95_S	1.210	1.00
64_E	68_Q	1.204	1.00
57_G	61_R	1.202	1.00
14_W	19_R	1.192	1.00
124_E	127_D	1.173	1.00
105_R	109_N	1.153	1.00
54_S	150_H	1.149	1.00
15_N	176_N	1.147	1.00
67_A	74_I	1.143	1.00
125_L	153_A	1.137	1.00
53_S	74_I	1.136	1.00
41_T	44_K	1.136	1.00
54_S	59_T	1.134	1.00
6_L	154_L	1.129	1.00
38_Q	41_T	1.126	1.00
168_A	171_R	1.111	1.00
87_V	117_P	1.098	1.00
113_D	123_Q	1.092	1.00
126_S	130_N	1.083	1.00
84_N	89_E	1.083	1.00
63_A	148_V	1.068	1.00
52_I	77_D	1.052	1.00
48_I	144_R	1.043	1.00
37_M	68_Q	1.040	1.00
29_T	32_G	1.021	1.00
6_L	157_L	1.014	1.00
78_S	81_R	1.012	1.00
185_Q	188_L	1.006	1.00
53_S	60_R	1.002	1.00
56_L	81_R	0.999	1.00
63_A	74_I	0.996	1.00
24_S	89_E	0.993	1.00
59_T	150_H	0.989	1.00
140_P	143_S	0.980	1.00
132_A	147_L	0.979	1.00
88_L	96_L	0.976	1.00
25_D	57_G	0.975	1.00
125_L	156_C	0.971	1.00
91_R	96_L	0.963	1.00
11_E	35_Q	0.961	1.00
133_L	157_L	0.957	1.00
50_H	145_P	0.954	1.00
5_Y	46_L	0.942	1.00
55_D	76_F	0.941	1.00
44_K	69_A	0.941	1.00
40_A	65_I	0.939	1.00
127_D	131_A	0.939	1.00
174_L	180_S	0.937	1.00
64_E	74_I	0.935	1.00
26_S	29_T	0.929	1.00
23_Q	55_D	0.927	1.00
65_I	68_Q	0.918	1.00
158_V	162_L	0.917	1.00
165_P	168_A	0.909	1.00
132_A	136_C	0.904	1.00
80_L	147_L	0.903	1.00
52_I	140_P	0.901	1.00
125_L	129_V	0.899	1.00
30_A	34_Q	0.899	1.00
19_R	92_H	0.898	1.00
175_R	178_S	0.889	1.00
12_T	176_N	0.888	1.00
126_S	160_T	0.882	1.00
53_S	59_T	0.881	1.00
174_L	178_S	0.879	1.00
82_E	151_G	0.869	1.00
126_S	156_C	0.867	1.00
134_E	137_R	0.867	1.00
21_Q	26_S	0.862	1.00
52_I	75_I	0.852	1.00
39_V	177_C	0.852	1.00
162_L	182_V	0.844	1.00
57_G	60_R	0.839	1.00
51_I	72_C	0.835	1.00
12_T	21_Q	0.832	1.00
158_V	180_S	0.831	1.00
37_M	69_A	0.829	1.00
5_Y	179_I	0.828	1.00
15_N	21_Q	0.825	1.00
136_C	145_P	0.821	1.00
164_L	168_A	0.820	1.00
94_D	98_E	0.820	1.00
16_A	31_K	0.806	1.00
14_W	24_S	0.803	1.00
95_S	98_E	0.790	1.00
162_L	172_L	0.787	1.00
10_G	28_L	0.783	1.00
12_T	29_T	0.780	1.00
136_C	147_L	0.775	1.00
35_Q	176_N	0.773	1.00
52_I	145_P	0.767	1.00
13_Q	27_P	0.766	1.00
36_A	40_A	0.762	1.00
46_L	144_R	0.761	1.00
37_M	41_T	0.745	1.00
4_V	133_L	0.743	1.00
23_Q	56_L	0.741	1.00
158_V	182_V	0.741	1.00
40_A	69_A	0.737	1.00
85_M	89_E	0.735	1.00
10_G	62_T	0.734	1.00
94_D	97_T	0.734	1.00
61_R	65_I	0.730	1.00
83_L	125_L	0.726	1.00
7_V	179_I	0.723	1.00
65_I	69_A	0.715	1.00
107_L	111_T	0.714	1.00
95_S	99_E	0.713	1.00
22_G	89_E	0.712	1.00
52_I	136_C	0.710	1.00
36_A	177_C	0.707	1.00
42_R	179_I	0.704	1.00
154_L	180_S	0.703	1.00
135_S	139_L	0.702	1.00
108_V	111_T	0.699	1.00
53_S	63_A	0.699	1.00
7_V	148_V	0.695	1.00
13_Q	16_A	0.693	1.00
12_T	15_N	0.693	1.00
6_L	182_V	0.684	1.00
137_R	184_Y	0.671	1.00
22_G	56_L	0.670	1.00
111_T	114_G	0.655	1.00
36_A	65_I	0.655	1.00
102_N	106_Q	0.654	1.00
47_G	144_R	0.648	1.00
159_S	169_E	0.648	1.00
132_A	135_S	0.646	1.00
67_A	72_C	0.642	1.00
103_W	106_Q	0.641	1.00
37_M	40_A	0.639	1.00
122_M	156_C	0.635	1.00
40_A	44_K	0.631	1.00
27_P	33_E	0.631	1.00
56_L	59_T	0.629	1.00
32_G	35_Q	0.629	1.00
39_V	179_I	0.626	1.00
88_L	116_I	0.626	1.00
139_L	143_S	0.624	1.00
16_A	29_T	0.623	1.00
129_V	160_T	0.621	1.00
48_I	70_C	0.621	1.00
51_I	70_C	0.617	1.00
161_I	182_V	0.617	1.00
13_Q	26_S	0.610	1.00
134_E	138_D	0.609	1.00
6_L	147_L	0.608	1.00
28_L	32_G	0.604	1.00
127_D	130_N	0.603	1.00
102_N	105_R	0.602	1.00
50_H	140_P	0.601	1.00
107_L	114_G	0.600	1.00
67_A	70_C	0.599	1.00
130_N	157_L	0.599	1.00
91_R	100_E	0.599	1.00
131_A	135_S	0.594	1.00
10_G	32_G	0.593	1.00
159_S	166_A	0.589	1.00
97_T	105_R	0.589	1.00
51_I	146_L	0.586	1.00
46_L	70_C	0.583	1.00
125_L	152_I	0.582	1.00
67_A	71_G	0.582	1.00
169_E	172_L	0.580	1.00
25_D	56_L	0.580	1.00
18_R	93_I	0.578	1.00
82_E	152_I	0.577	1.00
101_E	105_R	0.575	1.00
32_G	36_A	0.571	1.00
134_E	160_T	0.570	1.00
112_V	123_Q	0.565	1.00
97_T	104_R	0.564	1.00
28_L	36_A	0.558	1.00
159_S	164_L	0.557	1.00
97_T	102_N	0.557	1.00
157_L	161_I	0.552	1.00
80_L	136_C	0.551	1.00
104_R	108_V	0.550	1.00
112_V	167_W	0.547	1.00
18_R	94_D	0.546	1.00
12_T	26_S	0.542	1.00
42_R	45_E	0.541	1.00
63_A	67_A	0.541	1.00
97_T	101_E	0.539	1.00
10_G	177_C	0.538	1.00
55_D	77_D	0.538	1.00
24_S	90_K	0.533	1.00
40_A	66_I	0.531	1.00
122_M	169_E	0.529	1.00
9_H	82_E	0.526	1.00
46_L	181_R	0.523	1.00
115_R	121_S	0.523	1.00
4_V	184_Y	0.521	1.00
18_R	21_Q	0.521	1.00
47_G	70_C	0.520	1.00
45_E	70_C	0.518	1.00
5_Y	43_A	0.517	1.00
49_T	146_L	0.514	1.00
64_E	76_F	0.514	1.00
21_Q	151_G	0.512	1.00
83_L	122_M	0.511	1.00
149_S	174_L	0.510	1.00
26_S	57_G	0.509	1.00
51_I	74_I	0.508	1.00
154_L	158_V	0.506	1.00
35_Q	38_Q	0.506	1.00
140_P	145_P	0.506	1.00
35_Q	177_C	0.505	1.00
8_R	58_R	0.503	0.99
21_Q	176_N	0.501	0.99
107_L	110_G	0.500	0.99

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
1h2eA	1	0.9581	100	0.136	Contact Map
4ij5A	2	0.9767	100	0.139	Contact Map
4pzaA	2	0.9488	100	0.149	Contact Map
3gp3A	1	0.9163	100	0.159	Contact Map
1e58A	2	0.9767	100	0.162	Contact Map
3kkkA	3	0.9163	100	0.165	Contact Map
3d8hA	2	0.9209	100	0.167	Contact Map
4embA	2	0.986	100	0.176	Contact Map
3dcyA	1	0.9349	100	0.184	Contact Map
4odiA	3	0.9767	100	0.185	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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