Magnesium in PDB 7vrd: Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium

Enzymatic activity of Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium

All present enzymatic activity of Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium:
4.2.1.11;

Protein crystallography data

The structure of Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium, PDB code: 7vrd was solved by M.Zhang, X.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.06 / 1.70
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 264.264, 61.848, 111.752, 90, 109.8, 90
R / Rfree (%) 17.2 / 19.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium (pdb code 7vrd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium, PDB code: 7vrd:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 1 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:9.6
occ:1.00
 O A:HOH674 2.0 10.1 1.0
O4P A:2PG503 2.0 10.8 1.0
O A:SER41 2.0 10.2 1.0
O A:HOH613 2.1 8.8 1.0
OG A:SER41 2.2 9.6 1.0
O1 A:2PG503 2.2 13.3 1.0
C A:SER41 3.0 10.7 1.0
CB A:SER41 3.1 10.2 1.0
C1 A:2PG503 3.1 15.4 1.0
P A:2PG503 3.3 11.2 1.0
CA A:SER41 3.5 10.4 1.0
O1P A:2PG503 3.6 13.5 1.0
C2 A:2PG503 3.6 15.0 1.0
OD2 A:ASP324 3.8 9.9 1.0
O2P A:2PG503 3.9 10.8 1.0
NZ A:LYS349 3.9 14.2 1.0
MG A:MG502 4.0 9.9 1.0
OD1 A:ASP325 4.1 11.1 1.0
N A:SER41 4.1 10.7 1.0
NH2 A:ARG378 4.1 9.0 1.0
OD2 A:ASP325 4.1 11.6 1.0
O2 A:2PG503 4.2 15.2 1.0
O A:HOH628 4.2 9.6 1.0
N A:THR42 4.2 11.0 1.0
NE2 A:GLN169 4.3 10.2 1.0
OE1 A:GLN169 4.3 10.7 1.0
O3P A:2PG503 4.5 10.9 1.0
CG A:ASP325 4.5 10.7 1.0
CA A:THR42 4.7 11.3 1.0
CD A:GLN169 4.8 10.2 1.0
CG A:ASP324 4.9 9.5 1.0

Magnesium binding site 2 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 2 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:9.9
occ:1.00
 OE2 A:GLU297 2.0 10.7 1.0
O A:HOH628 2.1 9.6 1.0
OD2 A:ASP324 2.1 9.9 1.0
OD2 A:ASP248 2.1 10.7 1.0
O2 A:2PG503 2.1 15.2 1.0
O1 A:2PG503 2.3 13.3 1.0
C1 A:2PG503 2.5 15.4 1.0
CG A:ASP248 3.0 10.2 1.0
CG A:ASP324 3.1 9.5 1.0
CD A:GLU297 3.1 10.3 1.0
OD1 A:ASP248 3.3 10.2 1.0
CB A:ASP324 3.6 9.3 1.0
O A:HOH613 3.8 8.8 1.0
NZ A:LYS400 3.8 12.0 1.0
OE1 A:GLU297 3.9 10.6 1.0
O A:HOH674 3.9 10.1 1.0
MG A:MG501 4.0 9.6 1.0
CG A:GLU297 4.0 10.0 1.0
C2 A:2PG503 4.1 15.0 1.0
NZ A:LYS349 4.1 14.2 1.0
NE2 A:GLN169 4.1 10.2 1.0
CD2 A:LEU347 4.1 9.9 1.0
OD2 A:ASP298 4.1 10.6 1.0
OD1 A:ASP324 4.2 9.6 1.0
CB A:ASP248 4.3 9.9 1.0
OE2 A:GLU170 4.6 11.7 1.0
C3 A:2PG503 4.9 15.6 1.0
CG A:ASP298 4.9 10.2 1.0
CB A:ALA250 4.9 9.5 1.0

Magnesium binding site 3 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 3 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:14.8
occ:1.00
 O B:HOH785 2.0 18.6 1.0
OD2 B:ASP324 2.0 16.5 1.0
OE2 B:GLU297 2.1 16.6 1.0
OD2 B:ASP248 2.1 17.5 1.0
O B:HOH705 2.1 19.1 1.0
O B:HOH617 2.1 14.5 1.0
CG B:ASP248 3.0 17.3 1.0
CG B:ASP324 3.1 16.1 1.0
CD B:GLU297 3.2 15.8 1.0
OD1 B:ASP248 3.4 17.4 1.0
CB B:ASP324 3.6 15.7 1.0
OE1 B:GLU297 4.1 16.5 1.0
CG B:GLU297 4.1 15.5 1.0
O B:HOH648 4.1 30.1 1.0
O B:HOH741 4.1 24.1 1.0
NZ B:LYS400 4.1 18.6 1.0
O B:HOH621 4.2 26.4 1.0
OD1 B:ASP324 4.2 16.2 1.0
NE2 B:GLN169 4.2 21.8 1.0
OE2 B:GLU170 4.3 19.8 1.0
CB B:ASP248 4.3 17.0 1.0
OD2 B:ASP298 4.3 17.7 1.0
O B:HOH827 4.5 31.5 1.0
CD2 B:LEU347 4.5 20.0 1.0
CD B:GLU170 4.9 19.4 1.0
NZ B:LYS349 4.9 17.5 1.0

Magnesium binding site 4 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 4 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg501

b:8.6
occ:1.00
 O C:SER41 2.0 9.7 1.0
O C:HOH695 2.0 8.8 1.0
O4P C:2PG503 2.1 10.3 1.0
O C:HOH636 2.1 9.2 1.0
OG C:SER41 2.2 10.1 1.0
O2 C:2PG503 2.2 12.7 1.0
C C:SER41 3.0 10.3 1.0
CB C:SER41 3.1 10.2 1.0
C1 C:2PG503 3.1 14.7 1.0
P C:2PG503 3.3 10.4 1.0
C2 C:2PG503 3.5 14.2 1.0
CA C:SER41 3.5 10.2 1.0
O1P C:2PG503 3.6 12.8 1.0
OD2 C:ASP324 3.9 9.9 1.0
NZ C:LYS349 3.9 16.5 1.0
O3P C:2PG503 3.9 10.4 1.0
MG C:MG502 4.0 9.7 1.0
OD1 C:ASP325 4.1 11.0 1.0
N C:SER41 4.1 10.5 1.0
NH2 C:ARG378 4.1 8.9 1.0
O1 C:2PG503 4.2 14.4 1.0
OD2 C:ASP325 4.2 11.4 1.0
O C:HOH643 4.2 8.9 1.0
N C:THR42 4.2 10.6 1.0
NE2 C:GLN169 4.2 9.9 1.0
OE1 C:GLN169 4.3 10.2 1.0
O2P C:2PG503 4.5 10.4 1.0
CG C:ASP325 4.5 10.7 1.0
CA C:THR42 4.7 11.5 1.0
CD C:GLN169 4.7 9.8 1.0
CG C:ASP324 4.9 9.5 1.0

Magnesium binding site 5 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 5 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg502

b:9.7
occ:1.00
 OD2 C:ASP324 2.0 9.9 1.0
OE2 C:GLU297 2.0 10.7 1.0
O C:HOH643 2.1 8.9 1.0
OD2 C:ASP248 2.1 10.3 1.0
O1 C:2PG503 2.1 14.4 1.0
O2 C:2PG503 2.3 12.7 1.0
C1 C:2PG503 2.5 14.7 1.0
CG C:ASP248 3.0 9.8 1.0
CG C:ASP324 3.1 9.5 1.0
CD C:GLU297 3.2 10.2 1.0
OD1 C:ASP248 3.3 10.2 1.0
CB C:ASP324 3.6 9.2 1.0
O C:HOH636 3.8 9.2 1.0
NZ C:LYS400 3.9 11.8 1.0
OE1 C:GLU297 3.9 10.3 1.0
O C:HOH695 3.9 8.8 1.0
MG C:MG501 4.0 8.6 1.0
NZ C:LYS349 4.0 16.5 1.0
C2 C:2PG503 4.0 14.2 1.0
CG C:GLU297 4.1 10.0 1.0
OD2 C:ASP298 4.1 9.7 1.0
NE2 C:GLN169 4.1 9.9 1.0
CD2 C:LEU347 4.2 9.6 1.0
OD1 C:ASP324 4.2 9.6 1.0
CB C:ASP248 4.3 9.5 1.0
OE2 C:GLU170 4.6 10.9 1.0
C3 C:2PG503 4.9 15.4 1.0
CG C:ASP298 4.9 9.5 1.0
CB C:ALA250 4.9 9.0 1.0

Magnesium binding site 6 out of 6 in 7vrd

Go back to Magnesium Binding Sites List in 7vrd
Magnesium binding site 6 out of 6 in the Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium


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 From Candida Albicans Complexed with 2'- Phosphoglyceric Acid Sodium within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg501

b:13.7
occ:1.00
 O D:HOH620 2.0 14.5 1.0
OE2 D:GLU297 2.0 16.8 1.0
O D:HOH788 2.1 19.1 1.0
OD2 D:ASP324 2.1 18.4 1.0
OD2 D:ASP248 2.1 17.3 1.0
O D:HOH752 2.1 19.5 1.0
CG D:ASP248 3.0 16.9 1.0
CG D:ASP324 3.1 18.2 1.0
CD D:GLU297 3.2 16.1 1.0
OD1 D:ASP248 3.4 17.0 1.0
CB D:ASP324 3.6 17.6 1.0
O D:HOH618 4.0 29.8 1.0
CG D:GLU297 4.0 15.7 1.0
OE1 D:GLU297 4.0 16.6 1.0
NZ D:LYS400 4.1 19.9 1.0
O D:HOH770 4.2 26.4 1.0
OE2 D:GLU170 4.2 19.9 1.0
O D:HOH637 4.2 27.0 1.0
OD2 D:ASP298 4.2 15.7 1.0
OD1 D:ASP324 4.2 18.6 1.0
NE2 D:GLN169 4.3 19.1 1.0
CB D:ASP248 4.3 16.5 1.0
O D:HOH827 4.5 29.7 1.0
CD2 D:LEU347 4.6 20.1 1.0
CD D:GLU170 4.8 19.2 1.0
O D:HOH768 4.9 29.0 1.0

Reference:

M.Zhang, X.Zhang. Crystal Structure of ENOLASE1 From Candida Albicans Complexed with 2'-Phosphoglyceric Acid Sodium at 1.7 Angstroms To Be Published.
Page generated: Thu Oct 3 10:38:29 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy