Atomistry » Sodium » PDB 5xuz-5yr7 » 5yr7
Atomistry »
  Sodium »
    PDB 5xuz-5yr7 »
      5yr7 »

Sodium in PDB 5yr7: Human Methionine Aminopeptidase Type 1B (F309L Mutant)

Enzymatic activity of Human Methionine Aminopeptidase Type 1B (F309L Mutant)

All present enzymatic activity of Human Methionine Aminopeptidase Type 1B (F309L Mutant):
3.4.11.18;

Protein crystallography data

The structure of Human Methionine Aminopeptidase Type 1B (F309L Mutant), PDB code: 5yr7 was solved by V.Pillalamarri, T.Arya, A.Addlagatta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.69 / 2.06
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 47.414, 77.193, 48.220, 90.00, 92.03, 90.00
R / Rfree (%) 19.6 / 26.6

Other elements in 5yr7:

The structure of Human Methionine Aminopeptidase Type 1B (F309L Mutant) also contains other interesting chemical elements:

Cobalt (Co) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Human Methionine Aminopeptidase Type 1B (F309L Mutant) (pdb code 5yr7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Human Methionine Aminopeptidase Type 1B (F309L Mutant), PDB code: 5yr7:

Sodium binding site 1 out of 1 in 5yr7

Go back to Sodium Binding Sites List in 5yr7
Sodium binding site 1 out of 1 in the Human Methionine Aminopeptidase Type 1B (F309L Mutant)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Methionine Aminopeptidase Type 1B (F309L Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na405

b:31.4
occ:1.00
O A:HOH544 2.2 29.5 1.0
O A:SER363 2.3 36.1 1.0
O A:VAL209 2.4 31.6 1.0
O A:ASN207 2.4 32.5 1.0
O A:HOH560 3.1 30.3 1.0
C A:ASN207 3.2 29.1 1.0
N A:ASN207 3.4 30.6 1.0
C A:SER363 3.4 31.1 1.0
C A:VAL209 3.5 28.8 1.0
CA A:ASN207 3.7 30.1 1.0
C A:VAL206 3.7 26.4 1.0
N A:VAL209 3.8 30.2 1.0
O A:SER205 4.0 32.5 1.0
N A:SER363 4.0 33.8 1.0
O A:VAL206 4.0 30.4 1.0
CA A:SER363 4.2 30.1 1.0
N A:GLU208 4.2 28.8 1.0
CA A:VAL209 4.2 28.6 1.0
C A:SER205 4.2 27.6 1.0
C A:GLU208 4.3 28.8 1.0
CD1 A:ILE225 4.4 30.9 1.0
CG1 A:ILE225 4.4 31.7 1.0
O A:HOH518 4.5 24.0 1.0
CB A:SER363 4.5 29.2 1.0
CA A:VAL206 4.5 28.2 1.0
N A:ALA364 4.5 28.9 1.0
N A:VAL206 4.5 27.7 1.0
N A:ILE210 4.6 26.6 1.0
CB A:SER205 4.6 23.4 1.0
CA A:GLU208 4.6 29.6 1.0
CB A:VAL209 4.7 26.7 1.0
CA A:ALA364 4.8 26.0 1.0
CA A:ILE210 4.8 27.0 1.0

Reference:

V.Pillalamarri, T.Arya, A.Addlagatta. Differential Inhibition of Sub-Type 1 Methionine Aminopeptidases By Ovalicin To Be Published.
Page generated: Tue Dec 15 11:51:10 2020

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