Q9HQP0 - HALSA - GREMLIN Contacts

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Q9HQP0 - Glycerol-3-phosphate dehydrogenase chain A

UniProt:	Q9HQP0	Sequences: MHPASGVMVTVETPETDTVFNRCRPAADGDIVVPHGSTAVLGTTSVDVDDADEFATPDAAVERVIDECSALLPAASDAPIRTTYWGVRPLYSPSDYGDDARAISRGFYVLDHADRDDTAGLTTVVGGKLTTHRLMAEATADLVADRLGVTEPSRTANEPLPGHDDPERLDALVDTFDAASPADADAR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	187 (163)
Sequences:	3106 (1822)
Seq/√Len:	142.7

ECOLI - GLPA GLPD
BACSU - GLPD
HALSA - Q9HQP0 Q9HNS4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
58_D	77_D	4.098	1.00
11_V	41_L	3.740	1.00
62_E	66_D	3.441	1.00
62_E	77_D	3.276	1.00
69_S	75_A	3.167	1.00
7_V	64_V	2.851	1.00
2_H	47_D	2.655	1.00
111_D	146_R	2.484	1.00
61_V	83_T	2.440	1.00
5_S	46_V	2.421	1.00
58_D	62_E	2.363	1.00
2_H	92_S	2.275	1.00
13_T	37_S	2.265	1.00
56_T	61_V	2.215	1.00
5_S	48_V	2.196	1.00
122_T	143_V	2.194	1.00
56_T	83_T	2.159	1.00
7_V	46_V	2.013	1.00
61_V	77_D	1.952	1.00
5_S	57_P	1.934	1.00
142_L	145_D	1.823	1.00
65_I	77_D	1.759	1.00
12_E	38_T	1.758	1.00
91_Y	108_Y	1.718	1.00
137_E	156_A	1.693	1.00
65_I	75_A	1.683	1.00
27_A	70_A	1.662	1.00
40_V	84_Y	1.629	1.00
159_P	163_H	1.616	1.00
142_L	146_R	1.616	1.00
141_D	153_S	1.612	1.00
136_A	153_S	1.600	1.00
65_I	69_S	1.600	1.00
9_V	41_L	1.549	1.00
93_P	97_G	1.516	1.00
57_P	60_A	1.490	1.00
48_V	87_V	1.470	1.00
107_F	138_A	1.466	1.00
12_E	81_R	1.440	1.00
15_E	79_P	1.424	1.00
10_T	82_T	1.421	1.00
50_D	53_E	1.417	1.00
144_A	149_V	1.417	1.00
77_D	80_I	1.413	1.00
151_E	154_R	1.410	1.00
28_D	43_T	1.401	1.00
111_D	122_T	1.376	1.00
27_A	66_D	1.373	1.00
93_P	103_I	1.364	1.00
137_E	155_T	1.342	1.00
137_E	153_S	1.341	1.00
68_C	75_A	1.340	1.00
13_T	19_V	1.339	1.00
124_V	135_M	1.289	1.00
122_T	142_L	1.287	1.00
27_A	67_E	1.280	1.00
109_V	139_T	1.239	1.00
32_V	67_E	1.239	1.00
51_A	54_F	1.212	1.00
111_D	142_L	1.210	1.00
88_R	105_R	1.177	1.00
10_T	40_V	1.150	0.99
38_T	81_R	1.147	0.99
41_L	64_V	1.142	0.99
134_L	138_A	1.138	0.99
26_A	67_E	1.129	0.99
5_S	85_W	1.122	0.99
16_T	39_A	1.120	0.99
154_R	158_E	1.112	0.99
90_L	128_K	1.105	0.99
122_T	139_T	1.092	0.99
44_T	128_K	1.080	0.99
41_L	68_C	1.076	0.99
134_L	137_E	1.068	0.99
137_E	141_D	1.062	0.99
109_V	138_A	1.050	0.99
45_S	100_A	1.028	0.99
46_V	60_A	1.026	0.99
47_D	103_I	1.016	0.99
15_E	39_A	1.007	0.99
88_R	128_K	0.996	0.98
7_V	56_T	0.996	0.98
122_T	146_R	0.986	0.98
147_L	150_T	0.977	0.98
22_R	26_A	0.955	0.98
112_H	123_T	0.955	0.98
105_R	128_K	0.936	0.98
21_N	33_V	0.933	0.98
8_M	30_D	0.932	0.98
14_P	74_A	0.928	0.98
112_H	119_A	0.928	0.98
8_M	45_S	0.922	0.97
23_C	31_I	0.921	0.97
11_V	80_I	0.921	0.97
141_D	155_T	0.912	0.97
66_D	70_A	0.912	0.97
141_D	144_A	0.908	0.97
90_L	105_R	0.900	0.97
3_P	107_F	0.884	0.97
132_H	155_T	0.882	0.97
15_E	75_A	0.867	0.96
102_A	108_Y	0.855	0.96
32_V	64_V	0.849	0.96
140_A	153_S	0.849	0.96
165_D	168_R	0.846	0.96
113_A	146_R	0.845	0.96
46_V	57_P	0.827	0.95
35_H	40_V	0.826	0.95
7_V	83_T	0.808	0.95
144_A	150_T	0.808	0.95
107_F	135_M	0.808	0.95
137_E	154_R	0.806	0.95
4_A	100_A	0.806	0.95
23_C	26_A	0.805	0.95
89_P	135_M	0.796	0.94
113_A	152_P	0.794	0.94
12_E	37_S	0.787	0.94
166_P	169_L	0.784	0.94
48_V	54_F	0.782	0.94
26_A	54_F	0.781	0.94
143_V	148_G	0.780	0.94
143_V	147_L	0.778	0.93
31_I	35_H	0.775	0.93
144_A	147_L	0.773	0.93
33_V	132_H	0.771	0.93
113_A	119_A	0.769	0.93
63_R	72_L	0.769	0.93
76_S	79_P	0.768	0.93
17_D	20_F	0.743	0.92
46_V	59_A	0.729	0.91
74_A	78_A	0.727	0.91
164_D	169_L	0.722	0.91
44_T	88_R	0.721	0.91
3_P	51_A	0.718	0.90
6_G	88_R	0.717	0.90
102_A	106_G	0.717	0.90
44_T	105_R	0.711	0.90
60_A	106_G	0.711	0.90
92_S	96_Y	0.707	0.90
91_Y	125_V	0.706	0.90
28_D	31_I	0.705	0.90
15_E	18_T	0.704	0.90
89_P	128_K	0.700	0.89
24_R	71_L	0.698	0.89
99_D	102_A	0.698	0.89
28_D	32_V	0.693	0.89
132_H	160_L	0.690	0.89
12_E	79_P	0.687	0.88
145_D	150_T	0.686	0.88
11_V	16_T	0.676	0.88
140_A	143_V	0.676	0.88
31_I	84_Y	0.676	0.88
67_E	70_A	0.673	0.87
62_E	76_S	0.673	0.87
4_A	47_D	0.670	0.87
69_S	76_S	0.668	0.87
10_T	84_Y	0.667	0.87
93_P	104_S	0.665	0.87
109_V	142_L	0.658	0.86
146_R	149_V	0.658	0.86
6_G	128_K	0.658	0.86
124_V	139_T	0.654	0.86
13_T	38_T	0.647	0.85
110_L	125_V	0.647	0.85
17_D	84_Y	0.647	0.85
104_S	108_Y	0.644	0.85
46_V	120_G	0.635	0.84
14_P	68_C	0.635	0.84
74_A	145_D	0.632	0.84
93_P	96_Y	0.632	0.84
30_D	63_R	0.629	0.84
8_M	44_T	0.629	0.84
82_T	135_M	0.626	0.83
141_D	145_D	0.623	0.83
60_A	84_Y	0.620	0.83
124_V	155_T	0.619	0.83
13_T	39_A	0.615	0.82
69_S	79_P	0.614	0.82
91_Y	103_I	0.613	0.82
132_H	136_A	0.613	0.82
40_V	131_T	0.610	0.82
9_V	47_D	0.610	0.82
7_V	87_V	0.606	0.81
9_V	101_R	0.598	0.80
154_R	157_N	0.596	0.80
143_V	149_V	0.596	0.80
4_A	60_A	0.596	0.80
112_H	120_G	0.595	0.80
81_R	106_G	0.593	0.80
60_A	131_T	0.590	0.80
56_T	80_I	0.585	0.79
48_V	51_A	0.584	0.79
88_R	127_G	0.582	0.79
4_A	90_L	0.582	0.79
54_F	87_V	0.579	0.78
67_E	71_L	0.577	0.78
9_V	61_V	0.574	0.78
137_E	150_T	0.571	0.77
12_E	15_E	0.571	0.77
167_E	170_D	0.571	0.77
61_V	65_I	0.567	0.77
49_D	157_N	0.565	0.77
2_H	103_I	0.565	0.77
22_R	25_P	0.564	0.76
124_V	136_A	0.563	0.76
40_V	129_L	0.561	0.76
3_P	131_T	0.557	0.76
146_R	151_E	0.554	0.75
50_D	87_V	0.553	0.75
166_P	170_D	0.552	0.75
5_S	26_A	0.549	0.75
45_S	128_K	0.548	0.74
11_V	75_A	0.538	0.73
149_V	152_P	0.538	0.73
21_N	166_P	0.538	0.73
13_T	17_D	0.536	0.73
164_D	170_D	0.531	0.72
61_V	80_I	0.531	0.72
104_S	123_T	0.531	0.72
112_H	134_L	0.530	0.72
14_P	39_A	0.529	0.72
65_I	80_I	0.528	0.72
45_S	101_R	0.527	0.72
30_D	44_T	0.526	0.71
45_S	64_V	0.525	0.71
49_D	66_D	0.520	0.71
58_D	61_V	0.520	0.71
32_V	43_T	0.520	0.71
151_E	160_L	0.519	0.70
153_S	171_A	0.518	0.70
90_L	130_T	0.518	0.70
43_T	106_G	0.516	0.70
7_V	60_A	0.516	0.70
44_T	90_L	0.515	0.70
4_A	25_P	0.514	0.70
19_V	22_R	0.512	0.69
4_A	45_S	0.511	0.69
113_A	168_R	0.507	0.69
32_V	68_C	0.506	0.69
59_A	62_E	0.505	0.68
145_D	149_V	0.504	0.68
50_D	54_F	0.503	0.68
26_A	129_L	0.501	0.68
106_G	134_L	0.500	0.68

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
2rghA	2	0.9037	100	0.471	Contact Map
2qcuA	2	0.9786	100	0.473	Contact Map
3da1A	1	0.9037	100	0.51	Contact Map
3dmeA	2	0.7219	99.1	0.785	Contact Map
4x9mA	1	0.7914	99	0.801	Contact Map
1c0pA	2	0.7861	98.8	0.815	Contact Map
3wgtA	2	0.7433	98.3	0.838	Contact Map
4h1bA	1	0.8128	98.3	0.84	Contact Map
3axbA	2	0.8342	98.2	0.843	Contact Map
3pvcA	1	0.8235	98.1	0.847	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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