Magnesium in PDB 6lzr: Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.

Protein crystallography data

The structure of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose., PDB code: 6lzr was solved by Y.Kitaoku, P.Ubonbal, L.T.Tran, R.C.Robinson, W.Suginta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.30 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 61.879, 57.108, 164.259, 90, 99.53, 90
R / Rfree (%) 23.8 / 27.1

Other elements in 6lzr:

The structure of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms
Calcium (Ca) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. (pdb code 6lzr). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose., PDB code: 6lzr:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6lzr

Go back to Magnesium Binding Sites List in 6lzr
Magnesium binding site 1 out of 5 in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg617

b:15.4
occ:1.00
O A:HOH759 2.3 22.9 1.0
O A:HOH919 2.3 23.7 1.0
O A:ALA188 2.3 15.1 1.0
O A:LEU191 2.4 15.5 1.0
C A:ALA188 3.4 14.5 1.0
C A:LEU191 3.6 12.9 1.0
O A:HOH715 4.1 24.4 1.0
N A:LEU191 4.1 12.7 1.0
CA A:ALA189 4.2 14.4 1.0
CA A:LEU191 4.2 15.1 1.0
N A:ALA189 4.3 17.5 1.0
C A:ALA189 4.4 16.6 1.0
CA A:ALA188 4.4 14.1 1.0
OD1 A:ASP192 4.4 30.8 1.0
CB A:LEU191 4.4 13.5 1.0
O A:ALA189 4.6 19.4 1.0
O A:HOH1047 4.6 27.6 1.0
OE2 A:GLU181 4.6 28.2 1.0
N A:ASP192 4.7 12.6 1.0
CB A:ALA188 4.7 18.3 1.0
N A:ASN190 4.8 14.8 1.0
CA A:ASP192 4.9 12.7 1.0

Magnesium binding site 2 out of 5 in 6lzr

Go back to Magnesium Binding Sites List in 6lzr
Magnesium binding site 2 out of 5 in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg618

b:16.1
occ:1.00
OE1 A:GLU465 2.2 23.7 1.0
O A:HOH703 2.6 23.1 1.0
O A:HOH738 2.8 22.6 1.0
CD A:GLU465 3.5 22.5 1.0
CB A:GLU465 4.1 17.2 1.0
OE2 A:GLU465 4.3 31.9 1.0
OE2 A:GLU462 4.3 27.6 1.0
CG A:GLU465 4.3 17.6 1.0
OE1 A:GLU462 4.4 23.1 1.0
C1 A:EDO615 4.6 34.7 1.0
CD A:GLU462 4.7 23.0 1.0

Magnesium binding site 3 out of 5 in 6lzr

Go back to Magnesium Binding Sites List in 6lzr
Magnesium binding site 3 out of 5 in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg609

b:15.2
occ:1.00
OE1 B:GLU465 2.2 23.9 1.0
O B:HOH717 2.4 23.3 1.0
O B:HOH744 2.5 24.1 1.0
CD B:GLU465 3.4 18.4 1.0
OE1 B:GLU462 4.1 28.9 1.0
CB B:GLU465 4.1 15.7 1.0
CG B:GLU465 4.3 17.1 1.0
OE2 B:GLU462 4.3 25.6 1.0
OE2 B:GLU465 4.3 17.9 1.0
O B:HOH855 4.5 23.1 1.0
CD B:GLU462 4.6 24.9 1.0
O B:HOH806 4.8 23.2 1.0

Magnesium binding site 4 out of 5 in 6lzr

Go back to Magnesium Binding Sites List in 6lzr
Magnesium binding site 4 out of 5 in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg610

b:30.8
occ:1.00
O B:HOH753 2.0 20.5 1.0
O B:HOH1054 2.0 26.0 1.0
O B:HOH952 2.2 25.6 1.0
O B:HOH710 2.3 21.6 1.0
O B:HOH815 2.3 21.3 1.0
O B:ALA81 4.0 20.2 1.0
OD1 B:ASP86 4.3 17.7 1.0
OG1 B:THR83 4.3 25.4 1.0
OD2 B:ASP86 4.4 16.6 1.0
ND1 B:HIS144 4.4 24.9 1.0
O B:HOH1049 4.5 27.2 1.0
OD2 B:ASP85 4.6 36.8 1.0
CB B:ASP85 4.6 27.1 1.0
CG B:ASP86 4.7 16.8 1.0
CB B:HIS144 4.8 24.6 1.0

Magnesium binding site 5 out of 5 in 6lzr

Go back to Magnesium Binding Sites List in 6lzr
Magnesium binding site 5 out of 5 in the Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Chitin-Specific Solute Binding Protein From Vibrio Harveyi Co- Crystalized with Chitotetraose. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg611

b:14.7
occ:1.00
O2 B:EDO606 2.1 24.9 1.0
O B:HOH894 2.2 23.0 1.0
O B:ALA188 2.3 15.6 1.0
O B:HOH886 2.3 23.2 1.0
O B:LEU191 2.4 13.8 1.0
O B:HOH827 2.5 26.1 1.0
O1 B:EDO606 2.6 26.2 1.0
C2 B:EDO606 3.1 22.8 1.0
C1 B:EDO606 3.3 32.9 1.0
C B:ALA188 3.4 15.3 1.0
C B:LEU191 3.6 12.7 1.0
O B:HOH721 3.8 28.1 1.0
N B:LEU191 4.1 13.7 1.0
CA B:ALA189 4.2 12.6 1.0
N B:ALA189 4.2 16.8 1.0
CA B:LEU191 4.3 14.5 1.0
CA B:ALA188 4.3 14.4 1.0
C B:ALA189 4.4 16.0 1.0
CB B:LEU191 4.4 13.8 1.0
O B:HOH742 4.5 25.5 1.0
CB B:ALA188 4.6 17.6 1.0
O B:ALA189 4.6 20.7 1.0
N B:ASP192 4.7 12.3 1.0
OE2 B:GLU181 4.7 21.5 1.0
N B:ASN190 4.8 13.8 1.0
OD1 B:ASP192 4.9 27.3 1.0
CA B:ASP192 4.9 13.0 1.0

Reference:

Y.Kitaoku, P.Ubonbal, L.T.Tran, R.C.Robinson, W.Suginta. Structural Insight Into Chitin-Specific Solute-Binding Protein From Vibrio Harveyi To Be Published.
Page generated: Wed Mar 3 14:50:35 2021

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy