Atomistry » Magnesium » PDB 3ay9-3bc1 » 3b97
Atomistry »
  Magnesium »
    PDB 3ay9-3bc1 »
      3b97 »

Magnesium in PDB 3b97: Crystal Structure of Human Enolase 1

Enzymatic activity of Crystal Structure of Human Enolase 1

All present enzymatic activity of Crystal Structure of Human Enolase 1:
4.2.1.11;

Protein crystallography data

The structure of Crystal Structure of Human Enolase 1, PDB code: 3b97 was solved by H.J.Kang, S.K.Jung, S.J.Kim, S.J.Chung, 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 Human Enolase 1 (pdb code 3b97). 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 Human Enolase 1, PDB code: 3b97:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 1 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg434

b:18.7
occ:1.00
 O A:HOH614 2.1 8.1 1.0
OD2 A:ASP317 2.2 7.4 1.0
O A:HOH439 2.3 8.0 1.0
OD2 A:ASP244 2.3 13.2 1.0
OE2 A:GLU292 2.3 15.8 1.0
MG A:MG435 3.1 19.1 1.0
CG A:ASP244 3.2 17.1 1.0
CG A:ASP317 3.4 16.1 1.0
OD1 A:ASP244 3.5 13.8 1.0
CD A:GLU292 3.5 10.4 1.0
NZ A:LYS342 3.5 9.8 1.0
O A:HOH438 3.6 8.0 1.0
OE1 A:GLN165 3.7 17.1 1.0
O A:HOH437 3.7 10.4 1.0
NZ A:LYS393 3.8 7.4 1.0
CB A:ASP317 4.0 8.5 1.0
O1 A:SO4436 4.1 9.8 1.0
OE1 A:GLU292 4.2 9.9 1.0
CD2 A:LEU340 4.3 8.8 1.0
OD2 A:ASP293 4.3 12.6 1.0
OD1 A:ASP317 4.3 14.4 1.0
O2 A:SO4436 4.4 11.5 1.0
CG A:GLU292 4.5 7.3 1.0
OE2 A:GLU166 4.5 14.5 1.0
CB A:ASP244 4.6 10.4 1.0
CE A:LYS342 4.6 12.0 1.0
CD A:GLN165 4.7 13.9 1.0
OG A:SER39 4.8 11.7 1.0
CE A:LYS393 4.9 8.0 1.0
S A:SO4436 4.9 12.9 1.0
O A:HOH463 4.9 13.1 1.0
CB A:ALA246 4.9 12.1 1.0

Magnesium binding site 2 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 2 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg435

b:19.1
occ:1.00
 O A:HOH437 2.2 10.4 1.0
O A:HOH438 2.3 8.0 1.0
O2 A:SO4436 2.3 11.5 1.0
O A:SER39 2.3 19.2 1.0
OG A:SER39 2.4 11.7 1.0
MG A:MG434 3.1 18.7 1.0
CB A:SER39 3.3 14.3 1.0
S A:SO4436 3.3 12.9 1.0
C A:SER39 3.4 15.1 1.0
O1 A:SO4436 3.4 9.8 1.0
OD2 A:ASP317 3.5 7.4 1.0
NZ A:LYS342 3.7 9.8 1.0
O A:HOH439 3.8 8.0 1.0
CA A:SER39 3.8 12.3 1.0
OE1 A:GLN165 3.9 17.1 1.0
O3 A:SO4436 4.0 12.7 1.0
NE2 A:GLN165 4.1 9.1 1.0
O A:HOH614 4.1 8.1 1.0
OD2 A:ASP318 4.1 11.7 1.0
OD1 A:ASP318 4.2 11.7 1.0
N A:SER39 4.3 10.6 1.0
NH2 A:ARG371 4.4 7.3 1.0
CD A:GLN165 4.5 13.9 1.0
O4 A:SO4436 4.5 10.3 1.0
CG A:ASP318 4.6 12.9 1.0
N A:THR40 4.6 17.5 1.0
CG A:ASP317 4.7 16.1 1.0
OD2 A:ASP244 4.9 13.2 1.0
CB A:ALA246 4.9 12.1 1.0

Magnesium binding site 3 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 3 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg434

b:22.7
occ:1.00
 O B:HOH438 2.1 14.8 1.0
OD2 B:ASP317 2.2 14.9 1.0
O B:HOH437 2.3 14.5 1.0
OE2 B:GLU292 2.3 28.3 1.0
OD2 B:ASP244 2.4 21.2 1.0
MG B:MG435 2.9 23.3 1.0
CG B:ASP244 3.3 20.8 1.0
CG B:ASP317 3.3 17.1 1.0
OD1 B:ASP244 3.5 21.2 1.0
NZ B:LYS342 3.5 13.3 1.0
CD B:GLU292 3.5 22.5 1.0
OE1 B:GLN165 3.6 17.4 1.0
O B:HOH439 3.7 14.2 1.0
NZ B:LYS393 3.8 11.0 1.0
O B:HOH444 3.9 16.1 1.0
O1 B:SO4436 3.9 17.3 1.0
CB B:ASP317 4.0 13.7 1.0
OE1 B:GLU292 4.1 18.2 1.0
OD1 B:ASP317 4.3 17.4 1.0
CD2 B:LEU340 4.3 12.4 1.0
O2 B:SO4436 4.4 15.8 1.0
OE2 B:GLU166 4.4 19.0 1.0
OD2 B:ASP293 4.4 22.7 1.0
CG B:GLU292 4.6 20.5 1.0
CD B:GLN165 4.7 15.1 1.0
CE B:LYS342 4.7 12.9 1.0
CB B:ASP244 4.7 16.8 1.0
OG B:SER39 4.7 11.5 1.0
S B:SO4436 4.8 16.8 1.0
O B:HOH448 4.9 16.9 1.0
CB B:ALA246 5.0 15.2 1.0

Magnesium binding site 4 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 4 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg435

b:23.3
occ:1.00
 O B:HOH444 2.3 16.1 1.0
O B:HOH439 2.3 14.2 1.0
O2 B:SO4436 2.3 15.8 1.0
OG B:SER39 2.4 11.5 1.0
O B:SER39 2.4 21.2 1.0
MG B:MG434 2.9 22.7 1.0
O1 B:SO4436 3.1 17.3 1.0
S B:SO4436 3.2 16.8 1.0
CB B:SER39 3.4 14.7 1.0
OD2 B:ASP317 3.4 14.9 1.0
C B:SER39 3.4 18.7 1.0
NZ B:LYS342 3.6 13.3 1.0
O B:HOH437 3.7 14.5 1.0
O3 B:SO4436 3.8 17.5 1.0
OE1 B:GLN165 3.8 17.4 1.0
CA B:SER39 3.9 16.1 1.0
O B:HOH438 4.0 14.8 1.0
NE2 B:GLN165 4.0 8.0 1.0
OD1 B:ASP318 4.3 16.3 1.0
N B:SER39 4.3 17.6 1.0
CD B:GLN165 4.3 15.1 1.0
OD2 B:ASP318 4.4 17.9 1.0
NH2 B:ARG371 4.5 12.6 1.0
O4 B:SO4436 4.5 15.2 1.0
CG B:ASP317 4.6 17.1 1.0
N B:THR40 4.6 18.8 1.0
CG B:ASP318 4.7 21.4 1.0
OD2 B:ASP244 4.7 21.2 1.0
CB B:ALA246 4.9 15.2 1.0

Magnesium binding site 5 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 5 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg434

b:29.7
occ:1.00
 O C:HOH557 2.2 16.8 1.0
OD2 C:ASP317 2.3 18.6 1.0
OD2 C:ASP244 2.3 23.4 1.0
O C:HOH437 2.4 22.8 1.0
OE2 C:GLU292 2.7 24.9 1.0
MG C:MG435 2.7 26.0 1.0
CG C:ASP244 3.3 23.8 1.0
OE1 C:GLN165 3.3 26.5 1.0
NZ C:LYS342 3.5 19.2 1.0
CG C:ASP317 3.5 19.4 1.0
OD1 C:ASP244 3.6 22.8 1.0
O C:HOH457 3.6 16.9 1.0
O1 C:SO4436 3.8 13.0 1.0
CD C:GLU292 3.8 16.0 1.0
NZ C:LYS393 4.0 12.0 1.0
O2 C:SO4436 4.1 15.7 1.0
CB C:ASP317 4.3 15.2 1.0
CD C:GLN165 4.4 21.6 1.0
OD1 C:ASP317 4.4 14.1 1.0
OG C:SER39 4.4 16.4 1.0
OE2 C:GLU166 4.5 21.6 1.0
OE1 C:GLU292 4.5 21.3 1.0
OD2 C:ASP293 4.5 17.2 1.0
S C:SO4436 4.6 18.3 1.0
CE C:LYS342 4.6 21.4 1.0
CD2 C:LEU340 4.6 10.8 1.0
CB C:ASP244 4.7 17.4 1.0
NE2 C:GLN165 4.7 17.3 1.0
CB C:ALA246 4.7 24.2 1.0
CG C:GLU292 4.8 13.4 1.0
O C:HOH450 5.0 23.4 1.0

Magnesium binding site 6 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 6 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg435

b:26.0
occ:1.00
 O C:HOH457 2.3 16.9 1.0
O2 C:SO4436 2.4 15.7 1.0
OG C:SER39 2.4 16.4 1.0
O C:SER39 2.5 25.1 1.0
MG C:MG434 2.7 29.7 1.0
CB C:SER39 3.3 18.4 1.0
S C:SO4436 3.3 18.3 1.0
O1 C:SO4436 3.4 13.0 1.0
C C:SER39 3.5 21.8 1.0
OD2 C:ASP317 3.5 18.6 1.0
NZ C:LYS342 3.7 19.2 1.0
O C:HOH437 3.7 22.8 1.0
CA C:SER39 3.9 19.7 1.0
O3 C:SO4436 3.9 18.3 1.0
OE1 C:GLN165 4.0 26.5 1.0
NE2 C:GLN165 4.0 17.3 1.0
OD2 C:ASP318 4.1 23.3 1.0
O C:HOH557 4.1 16.8 1.0
OD1 C:ASP318 4.4 18.7 1.0
N C:SER39 4.4 19.6 1.0
NH2 C:ARG371 4.4 14.2 1.0
CD C:GLN165 4.5 21.6 1.0
CG C:ASP317 4.6 19.4 1.0
CG C:ASP318 4.6 23.6 1.0
O4 C:SO4436 4.6 16.4 1.0
N C:THR40 4.6 21.3 1.0
OD2 C:ASP244 4.8 23.4 1.0
CB C:ALA246 4.9 24.2 1.0
OD1 C:ASP317 5.0 14.1 1.0

Magnesium binding site 7 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 7 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg434

b:32.5
occ:1.00
 OD2 D:ASP317 2.3 16.5 1.0
O D:HOH524 2.3 21.9 1.0
O D:HOH445 2.4 23.1 1.0
OD2 D:ASP244 2.4 25.4 1.0
MG D:MG435 2.6 30.5 1.0
OE2 D:GLU292 2.7 38.4 1.0
O D:HOH525 3.3 25.8 1.0
CG D:ASP244 3.3 32.0 1.0
OE1 D:GLN165 3.4 23.9 1.0
O D:HOH481 3.5 19.3 1.0
CG D:ASP317 3.5 21.5 1.0
OD1 D:ASP244 3.5 27.4 1.0
NZ D:LYS342 3.6 10.2 1.0
CD D:GLU292 3.8 33.1 1.0
O1 D:SO4436 3.9 21.5 1.0
NZ D:LYS393 4.1 13.8 1.0
OG D:SER39 4.3 19.3 1.0
O2 D:SO4436 4.3 20.6 1.0
CB D:ASP317 4.3 21.5 1.0
OD1 D:ASP317 4.4 20.9 1.0
CD D:GLN165 4.4 22.1 1.0
OE1 D:GLU292 4.5 33.7 1.0
OD2 D:ASP293 4.5 28.1 1.0
OE2 D:GLU166 4.6 26.5 1.0
CD2 D:LEU340 4.6 18.2 1.0
CB D:ALA246 4.7 27.5 1.0
S D:SO4436 4.7 24.0 1.0
CB D:ASP244 4.8 25.8 1.0
NE2 D:GLN165 4.8 15.3 1.0
CE D:LYS342 4.8 12.4 1.0
CG D:GLU292 4.8 31.9 1.0
O D:HOH438 4.9 17.1 1.0
O D:SER39 5.0 29.6 1.0

Magnesium binding site 8 out of 8 in 3b97

Go back to Magnesium Binding Sites List in 3b97
Magnesium binding site 8 out of 8 in the Crystal Structure of Human Enolase 1


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 Human Enolase 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg435

b:30.5
occ:1.00
 OG D:SER39 2.3 19.3 1.0
O D:HOH525 2.3 25.8 1.0
O D:HOH481 2.3 19.3 1.0
O2 D:SO4436 2.5 20.6 1.0
O D:SER39 2.5 29.6 1.0
MG D:MG434 2.6 32.5 1.0
O1 D:SO4436 3.2 21.5 1.0
S D:SO4436 3.3 24.0 1.0
CB D:SER39 3.4 23.6 1.0
C D:SER39 3.5 24.5 1.0
OD2 D:ASP317 3.5 16.5 1.0
NZ D:LYS342 3.7 10.2 1.0
O D:HOH445 3.7 23.1 1.0
OE1 D:GLN165 3.8 23.9 1.0
O D:HOH524 3.9 21.9 1.0
O3 D:SO4436 3.9 18.7 1.0
CA D:SER39 4.0 23.9 1.0
NE2 D:GLN165 4.0 15.3 1.0
OD2 D:ASP318 4.1 27.5 1.0
OD1 D:ASP318 4.3 22.9 1.0
N D:SER39 4.4 24.0 1.0
NH2 D:ARG371 4.4 12.3 1.0
CD D:GLN165 4.4 22.1 1.0
CG D:ASP318 4.6 26.4 1.0
O4 D:SO4436 4.6 25.1 1.0
CG D:ASP317 4.6 21.5 1.0
N D:THR40 4.7 23.8 1.0
OD2 D:ASP244 4.7 25.4 1.0
CB D:ALA246 4.9 27.5 1.0

Reference:

H.J.Kang, S.K.Jung, S.J.Kim, S.J.Chung. Structure of Human Alpha-Enolase (HENO1), A Multifunctional Glycolytic Enzyme. Acta Crystallogr.,Sect.D V. 64 651 2008.
ISSN: ISSN 0907-4449
PubMed: 18560153
DOI: 10.1107/S0907444908008561
Page generated: Wed Aug 14 08:53:52 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy