Magnesium in PDB 2psn: Crystal Structure of ENOLASE1
Enzymatic activity of Crystal Structure of ENOLASE1
All present enzymatic activity of Crystal Structure of ENOLASE1:
4.2.1.11;
Protein crystallography data
The structure of Crystal Structure of ENOLASE1, PDB code: 2psn
was solved by
J.K.Hyo,
J.K.Seung,
J.C.Sang,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
50.00 /
2.20
|
Space group
|
P 42
|
Cell size a, b, c (Å), α, β, γ (°)
|
192.796,
192.796,
65.170,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
18.4 /
21.7
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Crystal Structure of ENOLASE1
(pdb code 2psn). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the
Crystal Structure of ENOLASE1, PDB code: 2psn:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Magnesium binding site 1 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 1 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg701
b:18.3
occ:1.00
|
O
|
A:HOH889
|
2.2
|
7.7
|
1.0
|
OD2
|
A:ASP317
|
2.2
|
7.0
|
1.0
|
O
|
A:HOH712
|
2.3
|
7.6
|
1.0
|
OE2
|
A:GLU292
|
2.3
|
15.4
|
1.0
|
OD2
|
A:ASP244
|
2.3
|
12.8
|
1.0
|
MG
|
A:MG702
|
3.1
|
18.7
|
1.0
|
CG
|
A:ASP244
|
3.2
|
16.7
|
1.0
|
CG
|
A:ASP317
|
3.4
|
15.7
|
1.0
|
OD1
|
A:ASP244
|
3.5
|
13.4
|
1.0
|
CD
|
A:GLU292
|
3.5
|
10.0
|
1.0
|
NZ
|
A:LYS342
|
3.5
|
9.4
|
1.0
|
O
|
A:HOH711
|
3.6
|
7.6
|
1.0
|
OE1
|
A:GLN165
|
3.7
|
16.7
|
1.0
|
O
|
A:HOH710
|
3.7
|
10.0
|
1.0
|
NZ
|
A:LYS393
|
3.8
|
7.0
|
1.0
|
CB
|
A:ASP317
|
4.0
|
8.1
|
1.0
|
O1
|
A:PO4709
|
4.1
|
9.4
|
1.0
|
OE1
|
A:GLU292
|
4.2
|
9.5
|
1.0
|
CD2
|
A:LEU340
|
4.3
|
8.4
|
1.0
|
OD2
|
A:ASP293
|
4.3
|
12.2
|
1.0
|
OD1
|
A:ASP317
|
4.3
|
14.1
|
1.0
|
O2
|
A:PO4709
|
4.4
|
11.1
|
1.0
|
CG
|
A:GLU292
|
4.5
|
6.9
|
1.0
|
OE2
|
A:GLU166
|
4.5
|
14.1
|
1.0
|
CB
|
A:ASP244
|
4.6
|
10.0
|
1.0
|
CE
|
A:LYS342
|
4.7
|
11.6
|
1.0
|
CD
|
A:GLN165
|
4.7
|
13.5
|
1.0
|
OG
|
A:SER39
|
4.8
|
11.3
|
1.0
|
O
|
A:HOH736
|
4.9
|
12.7
|
1.0
|
CE
|
A:LYS393
|
4.9
|
7.6
|
1.0
|
CB
|
A:ALA246
|
4.9
|
11.7
|
1.0
|
P
|
A:PO4709
|
4.9
|
12.5
|
1.0
|
|
Magnesium binding site 2 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 2 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg702
b:18.7
occ:1.00
|
O
|
A:HOH710
|
2.2
|
10.0
|
1.0
|
O
|
A:HOH711
|
2.3
|
7.6
|
1.0
|
O2
|
A:PO4709
|
2.3
|
11.1
|
1.0
|
OG
|
A:SER39
|
2.4
|
11.3
|
1.0
|
O
|
A:SER39
|
2.4
|
18.9
|
1.0
|
MG
|
A:MG701
|
3.1
|
18.3
|
1.0
|
CB
|
A:SER39
|
3.3
|
13.9
|
1.0
|
P
|
A:PO4709
|
3.3
|
12.5
|
1.0
|
C
|
A:SER39
|
3.4
|
14.7
|
1.0
|
O1
|
A:PO4709
|
3.4
|
9.4
|
1.0
|
OD2
|
A:ASP317
|
3.5
|
7.0
|
1.0
|
NZ
|
A:LYS342
|
3.7
|
9.4
|
1.0
|
O
|
A:HOH712
|
3.8
|
7.6
|
1.0
|
CA
|
A:SER39
|
3.8
|
11.9
|
1.0
|
OE1
|
A:GLN165
|
3.9
|
16.7
|
1.0
|
O3
|
A:PO4709
|
4.0
|
12.3
|
1.0
|
NE2
|
A:GLN165
|
4.1
|
8.7
|
1.0
|
O
|
A:HOH889
|
4.1
|
7.7
|
1.0
|
OD2
|
A:ASP318
|
4.2
|
11.3
|
1.0
|
OD1
|
A:ASP318
|
4.2
|
11.3
|
1.0
|
N
|
A:SER39
|
4.3
|
10.2
|
1.0
|
NH2
|
A:ARG371
|
4.4
|
6.9
|
1.0
|
CD
|
A:GLN165
|
4.5
|
13.5
|
1.0
|
O4
|
A:PO4709
|
4.5
|
9.9
|
1.0
|
CG
|
A:ASP318
|
4.6
|
12.6
|
1.0
|
N
|
A:THR40
|
4.6
|
17.1
|
1.0
|
CG
|
A:ASP317
|
4.7
|
15.7
|
1.0
|
OD2
|
A:ASP244
|
4.8
|
12.8
|
1.0
|
CB
|
A:ALA246
|
4.9
|
11.7
|
1.0
|
|
Magnesium binding site 3 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 3 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg703
b:22.3
occ:1.00
|
O
|
B:HOH712
|
2.1
|
14.4
|
1.0
|
OD2
|
B:ASP317
|
2.2
|
14.5
|
1.0
|
O
|
B:HOH711
|
2.3
|
14.1
|
1.0
|
OE2
|
B:GLU292
|
2.3
|
27.9
|
1.0
|
OD2
|
B:ASP244
|
2.4
|
20.8
|
1.0
|
MG
|
B:MG704
|
2.9
|
22.9
|
1.0
|
CG
|
B:ASP244
|
3.3
|
20.4
|
1.0
|
CG
|
B:ASP317
|
3.3
|
16.7
|
1.0
|
OD1
|
B:ASP244
|
3.5
|
20.8
|
1.0
|
CD
|
B:GLU292
|
3.5
|
22.1
|
1.0
|
NZ
|
B:LYS342
|
3.5
|
12.9
|
1.0
|
OE1
|
B:GLN165
|
3.6
|
17.0
|
1.0
|
O
|
B:HOH713
|
3.7
|
13.8
|
1.0
|
NZ
|
B:LYS393
|
3.8
|
10.6
|
1.0
|
O
|
B:HOH718
|
3.9
|
15.7
|
1.0
|
O1
|
B:PO4710
|
4.0
|
16.9
|
1.0
|
CB
|
B:ASP317
|
4.0
|
13.3
|
1.0
|
OE1
|
B:GLU292
|
4.1
|
17.8
|
1.0
|
OD1
|
B:ASP317
|
4.3
|
17.0
|
1.0
|
CD2
|
B:LEU340
|
4.3
|
12.0
|
1.0
|
O2
|
B:PO4710
|
4.4
|
15.4
|
1.0
|
OE2
|
B:GLU166
|
4.4
|
18.6
|
1.0
|
OD2
|
B:ASP293
|
4.4
|
22.3
|
1.0
|
CG
|
B:GLU292
|
4.5
|
20.1
|
1.0
|
CB
|
B:ASP244
|
4.7
|
16.4
|
1.0
|
CD
|
B:GLN165
|
4.7
|
14.7
|
1.0
|
CE
|
B:LYS342
|
4.7
|
12.5
|
1.0
|
OG
|
B:SER39
|
4.8
|
11.1
|
1.0
|
P
|
B:PO4710
|
4.8
|
16.4
|
1.0
|
O
|
B:HOH722
|
4.9
|
16.5
|
1.0
|
CB
|
B:ALA246
|
5.0
|
14.8
|
1.0
|
|
Magnesium binding site 4 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 4 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg704
b:22.9
occ:1.00
|
O
|
B:HOH718
|
2.3
|
15.7
|
1.0
|
O2
|
B:PO4710
|
2.3
|
15.4
|
1.0
|
O
|
B:HOH713
|
2.3
|
13.8
|
1.0
|
OG
|
B:SER39
|
2.4
|
11.1
|
1.0
|
O
|
B:SER39
|
2.4
|
20.8
|
1.0
|
MG
|
B:MG703
|
2.9
|
22.3
|
1.0
|
O1
|
B:PO4710
|
3.1
|
16.9
|
1.0
|
P
|
B:PO4710
|
3.2
|
16.4
|
1.0
|
CB
|
B:SER39
|
3.4
|
14.3
|
1.0
|
OD2
|
B:ASP317
|
3.4
|
14.5
|
1.0
|
C
|
B:SER39
|
3.4
|
18.3
|
1.0
|
NZ
|
B:LYS342
|
3.6
|
12.9
|
1.0
|
O
|
B:HOH711
|
3.7
|
14.1
|
1.0
|
O3
|
B:PO4710
|
3.8
|
17.1
|
1.0
|
OE1
|
B:GLN165
|
3.8
|
17.0
|
1.0
|
CA
|
B:SER39
|
3.9
|
15.7
|
1.0
|
O
|
B:HOH712
|
4.0
|
14.4
|
1.0
|
NE2
|
B:GLN165
|
4.0
|
7.6
|
1.0
|
OD1
|
B:ASP318
|
4.3
|
15.9
|
1.0
|
N
|
B:SER39
|
4.3
|
17.2
|
1.0
|
CD
|
B:GLN165
|
4.3
|
14.7
|
1.0
|
OD2
|
B:ASP318
|
4.4
|
17.5
|
1.0
|
NH2
|
B:ARG371
|
4.4
|
12.2
|
1.0
|
O4
|
B:PO4710
|
4.5
|
14.8
|
1.0
|
CG
|
B:ASP317
|
4.6
|
16.7
|
1.0
|
N
|
B:THR40
|
4.6
|
18.4
|
1.0
|
CG
|
B:ASP318
|
4.7
|
21.0
|
1.0
|
OD2
|
B:ASP244
|
4.7
|
20.8
|
1.0
|
CB
|
B:ALA246
|
4.9
|
14.8
|
1.0
|
|
Magnesium binding site 5 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 5 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg705
b:29.3
occ:1.00
|
O
|
C:HOH831
|
2.2
|
16.4
|
1.0
|
OD2
|
C:ASP317
|
2.3
|
18.2
|
1.0
|
OD2
|
C:ASP244
|
2.3
|
23.0
|
1.0
|
O
|
C:HOH712
|
2.4
|
22.4
|
1.0
|
OE2
|
C:GLU292
|
2.7
|
24.5
|
1.0
|
MG
|
C:MG706
|
2.7
|
25.6
|
1.0
|
CG
|
C:ASP244
|
3.3
|
23.4
|
1.0
|
OE1
|
C:GLN165
|
3.3
|
26.1
|
1.0
|
NZ
|
C:LYS342
|
3.5
|
18.8
|
1.0
|
CG
|
C:ASP317
|
3.5
|
19.0
|
1.0
|
O
|
C:HOH732
|
3.6
|
16.5
|
1.0
|
OD1
|
C:ASP244
|
3.6
|
22.4
|
1.0
|
O1
|
C:PO4711
|
3.8
|
12.6
|
1.0
|
CD
|
C:GLU292
|
3.8
|
15.6
|
1.0
|
NZ
|
C:LYS393
|
4.0
|
11.6
|
1.0
|
O2
|
C:PO4711
|
4.1
|
15.3
|
1.0
|
CB
|
C:ASP317
|
4.3
|
14.8
|
1.0
|
CD
|
C:GLN165
|
4.4
|
21.2
|
1.0
|
OD1
|
C:ASP317
|
4.4
|
13.7
|
1.0
|
OG
|
C:SER39
|
4.4
|
16.0
|
1.0
|
OE2
|
C:GLU166
|
4.5
|
21.2
|
1.0
|
OE1
|
C:GLU292
|
4.5
|
20.9
|
1.0
|
OD2
|
C:ASP293
|
4.6
|
16.9
|
1.0
|
P
|
C:PO4711
|
4.6
|
17.9
|
1.0
|
CE
|
C:LYS342
|
4.6
|
21.0
|
1.0
|
CD2
|
C:LEU340
|
4.7
|
10.4
|
1.0
|
CB
|
C:ASP244
|
4.7
|
17.0
|
1.0
|
NE2
|
C:GLN165
|
4.7
|
16.9
|
1.0
|
CB
|
C:ALA246
|
4.7
|
23.8
|
1.0
|
CG
|
C:GLU292
|
4.8
|
13.0
|
1.0
|
O
|
C:HOH725
|
4.9
|
23.0
|
1.0
|
|
Magnesium binding site 6 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 6 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg706
b:25.6
occ:1.00
|
O
|
C:HOH732
|
2.3
|
16.5
|
1.0
|
O2
|
C:PO4711
|
2.4
|
15.3
|
1.0
|
OG
|
C:SER39
|
2.4
|
16.0
|
1.0
|
O
|
C:SER39
|
2.5
|
24.6
|
1.0
|
MG
|
C:MG705
|
2.7
|
29.3
|
1.0
|
CB
|
C:SER39
|
3.3
|
18.0
|
1.0
|
P
|
C:PO4711
|
3.3
|
17.9
|
1.0
|
O1
|
C:PO4711
|
3.4
|
12.6
|
1.0
|
C
|
C:SER39
|
3.5
|
21.4
|
1.0
|
OD2
|
C:ASP317
|
3.5
|
18.2
|
1.0
|
NZ
|
C:LYS342
|
3.7
|
18.8
|
1.0
|
O
|
C:HOH712
|
3.8
|
22.4
|
1.0
|
CA
|
C:SER39
|
3.9
|
19.3
|
1.0
|
O3
|
C:PO4711
|
3.9
|
17.9
|
1.0
|
OE1
|
C:GLN165
|
4.0
|
26.1
|
1.0
|
NE2
|
C:GLN165
|
4.0
|
16.9
|
1.0
|
OD2
|
C:ASP318
|
4.1
|
22.9
|
1.0
|
O
|
C:HOH831
|
4.1
|
16.4
|
1.0
|
N
|
C:SER39
|
4.4
|
19.2
|
1.0
|
OD1
|
C:ASP318
|
4.4
|
18.3
|
1.0
|
NH2
|
C:ARG371
|
4.4
|
13.8
|
1.0
|
CD
|
C:GLN165
|
4.5
|
21.2
|
1.0
|
CG
|
C:ASP317
|
4.6
|
19.0
|
1.0
|
CG
|
C:ASP318
|
4.6
|
23.2
|
1.0
|
O4
|
C:PO4711
|
4.6
|
16.0
|
1.0
|
N
|
C:THR40
|
4.6
|
20.9
|
1.0
|
OD2
|
C:ASP244
|
4.8
|
23.0
|
1.0
|
CB
|
C:ALA246
|
4.9
|
23.8
|
1.0
|
OD1
|
C:ASP317
|
5.0
|
13.7
|
1.0
|
|
Magnesium binding site 7 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 7 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg707
b:32.1
occ:1.00
|
OD2
|
D:ASP317
|
2.3
|
16.1
|
1.0
|
O
|
D:HOH800
|
2.3
|
21.5
|
1.0
|
O
|
D:HOH721
|
2.3
|
22.8
|
1.0
|
OD2
|
D:ASP244
|
2.4
|
25.0
|
1.0
|
MG
|
D:MG708
|
2.6
|
30.1
|
1.0
|
OE2
|
D:GLU292
|
2.6
|
38.0
|
1.0
|
CG
|
D:ASP244
|
3.3
|
31.6
|
1.0
|
O
|
D:HOH801
|
3.4
|
25.4
|
1.0
|
OE1
|
D:GLN165
|
3.4
|
23.4
|
1.0
|
CG
|
D:ASP317
|
3.5
|
21.1
|
1.0
|
O
|
D:HOH757
|
3.5
|
18.9
|
1.0
|
OD1
|
D:ASP244
|
3.5
|
27.1
|
1.0
|
NZ
|
D:LYS342
|
3.6
|
9.8
|
1.0
|
CD
|
D:GLU292
|
3.8
|
32.7
|
1.0
|
O1
|
D:PO4712
|
3.9
|
21.1
|
1.0
|
NZ
|
D:LYS393
|
4.1
|
13.4
|
1.0
|
CB
|
D:ASP317
|
4.3
|
21.1
|
1.0
|
O2
|
D:PO4712
|
4.3
|
20.2
|
1.0
|
OG
|
D:SER39
|
4.3
|
18.9
|
1.0
|
OD1
|
D:ASP317
|
4.4
|
20.5
|
1.0
|
OE1
|
D:GLU292
|
4.5
|
33.3
|
1.0
|
CD
|
D:GLN165
|
4.5
|
21.6
|
1.0
|
OD2
|
D:ASP293
|
4.5
|
27.7
|
1.0
|
CD2
|
D:LEU340
|
4.6
|
17.8
|
1.0
|
OE2
|
D:GLU166
|
4.6
|
26.1
|
1.0
|
CB
|
D:ALA246
|
4.7
|
27.1
|
1.0
|
CB
|
D:ASP244
|
4.8
|
25.4
|
1.0
|
P
|
D:PO4712
|
4.8
|
23.6
|
1.0
|
CE
|
D:LYS342
|
4.8
|
12.0
|
1.0
|
CG
|
D:GLU292
|
4.8
|
31.6
|
1.0
|
NE2
|
D:GLN165
|
4.8
|
14.9
|
1.0
|
O
|
D:HOH714
|
4.9
|
16.7
|
1.0
|
|
Magnesium binding site 8 out
of 8 in 2psn
Go back to
Magnesium Binding Sites List in 2psn
Magnesium binding site 8 out
of 8 in the Crystal Structure of ENOLASE1
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Crystal Structure of ENOLASE1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg708
b:30.1
occ:1.00
|
OG
|
D:SER39
|
2.3
|
18.9
|
1.0
|
O
|
D:HOH801
|
2.3
|
25.4
|
1.0
|
O
|
D:HOH757
|
2.3
|
18.9
|
1.0
|
O2
|
D:PO4712
|
2.5
|
20.2
|
1.0
|
O
|
D:SER39
|
2.5
|
29.2
|
1.0
|
MG
|
D:MG707
|
2.6
|
32.1
|
1.0
|
O1
|
D:PO4712
|
3.2
|
21.1
|
1.0
|
P
|
D:PO4712
|
3.3
|
23.6
|
1.0
|
CB
|
D:SER39
|
3.4
|
23.2
|
1.0
|
C
|
D:SER39
|
3.5
|
24.1
|
1.0
|
OD2
|
D:ASP317
|
3.5
|
16.1
|
1.0
|
NZ
|
D:LYS342
|
3.7
|
9.8
|
1.0
|
O
|
D:HOH721
|
3.7
|
22.8
|
1.0
|
OE1
|
D:GLN165
|
3.8
|
23.4
|
1.0
|
O
|
D:HOH800
|
3.8
|
21.5
|
1.0
|
O3
|
D:PO4712
|
3.9
|
18.3
|
1.0
|
CA
|
D:SER39
|
4.0
|
23.5
|
1.0
|
NE2
|
D:GLN165
|
4.0
|
14.9
|
1.0
|
OD2
|
D:ASP318
|
4.2
|
27.1
|
1.0
|
OD1
|
D:ASP318
|
4.3
|
22.5
|
1.0
|
CD
|
D:GLN165
|
4.4
|
21.6
|
1.0
|
N
|
D:SER39
|
4.4
|
23.6
|
1.0
|
NH2
|
D:ARG371
|
4.4
|
11.9
|
1.0
|
CG
|
D:ASP318
|
4.6
|
26.0
|
1.0
|
O4
|
D:PO4712
|
4.6
|
24.7
|
1.0
|
CG
|
D:ASP317
|
4.6
|
21.1
|
1.0
|
OD2
|
D:ASP244
|
4.7
|
25.0
|
1.0
|
N
|
D:THR40
|
4.7
|
23.4
|
1.0
|
CB
|
D:ALA246
|
4.9
|
27.1
|
1.0
|
|
Reference:
J.K.Hyo,
J.K.Seung,
J.C.Sang,
J.Suk-Kyeong.
Crystal Structure of ENOLASE1 Alpha To Be Published.
Page generated: Wed Aug 14 02:17:29 2024
|