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Sodium in PDB 4xmu: Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine

Enzymatic activity of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine

All present enzymatic activity of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine:
3.4.11.2;

Protein crystallography data

The structure of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine, PDB code: 4xmu was solved by A.Addlagatta, R.Gumpena, C.Kishor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.92 / 2.91
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 120.538, 120.538, 170.207, 90.00, 90.00, 120.00
R / Rfree (%) 14.7 / 21

Other elements in 4xmu:

The structure of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine (pdb code 4xmu). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine, PDB code: 4xmu:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 4xmu

Go back to Sodium Binding Sites List in 4xmu
Sodium binding site 1 out of 3 in the Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na903

b:21.9
occ:1.00
OE1 A:GLN19 2.3 20.1 1.0
O A:LEU138 2.4 20.9 1.0
O A:ILE20 2.7 19.3 1.0
CD A:GLN19 3.2 20.3 1.0
O A:HOH1168 3.5 11.6 1.0
C A:LEU138 3.6 19.6 1.0
C A:ILE20 3.8 19.3 1.0
N A:LEU138 3.8 18.8 1.0
NE2 A:GLN19 4.0 20.3 1.0
CG A:GLN19 4.1 19.0 1.0
CA A:LEU138 4.2 19.1 1.0
CB A:GLN19 4.3 18.9 1.0
CA A:THR21 4.4 19.0 1.0
N A:ILE20 4.5 20.4 1.0
CB A:LEU138 4.5 19.7 1.0
N A:THR21 4.5 18.9 1.0
CG2 A:THR21 4.6 18.3 1.0
N A:ALA139 4.7 19.6 1.0
C A:VAL137 4.8 17.5 1.0
CA A:ILE20 4.9 19.6 1.0
CA A:VAL137 4.9 16.7 1.0
CG1 A:VAL137 5.0 16.4 1.0

Sodium binding site 2 out of 3 in 4xmu

Go back to Sodium Binding Sites List in 4xmu
Sodium binding site 2 out of 3 in the Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na904

b:23.6
occ:1.00
O A:HOH1079 2.4 20.3 1.0
O A:GLY335 2.5 19.8 1.0
O A:ASP333 2.7 22.1 1.0
O A:SER332 2.9 22.6 1.0
C A:ASP333 3.6 20.6 1.0
C A:GLY335 3.8 19.0 1.0
CA A:ASP333 4.0 22.3 1.0
C A:SER332 4.1 21.4 1.0
N A:ARG337 4.4 21.7 1.0
N A:GLY335 4.5 18.3 1.0
N A:ASP333 4.6 21.1 1.0
CA A:GLY335 4.7 18.5 1.0
N A:LEU334 4.7 19.0 1.0
N A:SER336 4.7 18.7 1.0
CA A:SER336 4.8 19.3 1.0
C A:LEU334 4.9 18.0 1.0
CB A:ARG337 4.9 21.5 1.0
C A:SER336 5.0 20.6 1.0

Sodium binding site 3 out of 3 in 4xmu

Go back to Sodium Binding Sites List in 4xmu
Sodium binding site 3 out of 3 in the Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N in Complex with L-Alanine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na905

b:25.3
occ:1.00
O A:LEU243 2.6 19.4 1.0
OH A:TYR299 2.7 18.4 1.0
O A:MET234 2.8 20.3 1.0
C A:MET234 3.6 21.7 1.0
C A:LEU243 3.6 20.1 1.0
CZ A:TYR299 3.6 18.2 1.0
CA A:GLU244 3.6 22.6 1.0
CA A:MET234 3.7 21.9 1.0
CE2 A:TYR299 3.8 17.8 1.0
N A:GLU238 3.8 20.8 1.0
N A:TYR245 3.9 21.3 1.0
OE2 A:GLU238 3.9 29.1 1.0
CG A:GLU238 4.0 27.6 1.0
CB A:ASP237 4.0 17.0 1.0
C A:GLU244 4.1 21.1 1.0
N A:GLU244 4.1 21.5 1.0
CD A:GLU238 4.2 29.4 1.0
CB A:GLU238 4.2 25.3 1.0
CB A:MET234 4.2 21.8 1.0
CA A:GLU238 4.3 22.4 1.0
C A:ASP237 4.4 18.8 1.0
O A:HOH1062 4.6 10.2 1.0
CA A:ASP237 4.7 17.7 1.0
CG A:MET234 4.7 21.8 1.0
O A:SER233 4.7 20.9 1.0
CG A:ASP237 4.8 16.0 1.0
CB A:GLU244 4.8 25.3 1.0
OD2 A:ASP237 4.9 15.1 1.0
N A:LYS235 4.9 23.3 1.0
CE1 A:TYR299 4.9 18.3 1.0
CA A:LEU243 4.9 20.3 1.0
N A:ASP237 5.0 17.6 1.0
N A:MET234 5.0 22.1 1.0
CA A:TYR245 5.0 21.9 1.0

Reference:

A.Addlagatta, R.Gumpena. Crystal Structure of MET260ALA Mutant of E. Coli Aminopeptidase N To Be Published.
Page generated: Mon Oct 7 19:09:56 2024

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