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Sodium in PDB 6lzc: Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05

Enzymatic activity of Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05

All present enzymatic activity of Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05:
3.4.11.18;

Protein crystallography data

The structure of Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05, PDB code: 6lzc was solved by C.B.Sandeep, A.Addlagatta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.53 / 1.35
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 47.552, 77.219, 48.651, 90, 91.55, 90
R / Rfree (%) 16.7 / 19.7

Other elements in 6lzc:

The structure of Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05 also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Cobalt (Co) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05 (pdb code 6lzc). 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 Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05, PDB code: 6lzc:

Sodium binding site 1 out of 1 in 6lzc

Go back to Sodium Binding Sites List in 6lzc
Sodium binding site 1 out of 1 in the Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05


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 Human Methionine Aminopeptidase (HSMETAP1B) in Complex with Kv-P2-4H-05 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na404

b:21.5
occ:1.00
 O A:VAL209 2.2 19.1 1.0
O A:SER363 2.3 22.3 1.0
O A:ASN207 2.3 22.6 1.0
O A:HOH596 2.4 22.4 1.0
O A:HOH658 3.2 22.1 1.0
C A:ASN207 3.3 21.2 1.0
C A:SER363 3.4 19.4 1.0
C A:VAL209 3.4 16.2 1.0
N A:ASN207 3.6 23.1 1.0
C A:VAL206 3.9 18.1 1.0
CA A:ASN207 3.9 21.1 1.0
N A:VAL209 3.9 19.4 1.0
N A:SER363 3.9 22.1 1.0
O A:VAL206 4.0 22.0 1.0
CA A:SER363 4.0 19.6 1.0
O A:SER205 4.0 17.6 1.0
CB A:SER363 4.2 23.9 1.0
CA A:VAL209 4.2 18.3 1.0
O A:HOH556 4.3 19.8 1.0
N A:GLU208 4.4 21.8 1.0
C A:SER205 4.4 16.0 1.0
C A:GLU208 4.4 17.4 1.0
N A:ILE210 4.4 16.6 1.0
N A:ALA364 4.4 19.4 1.0
CD1 A:ILE225 4.5 25.3 1.0
CG1 A:ILE225 4.6 23.7 1.0
N A:VAL206 4.6 19.3 1.0
CA A:VAL206 4.6 21.4 1.0
CB A:SER205 4.7 14.9 1.0
CA A:ILE210 4.7 17.4 1.0
CA A:ALA364 4.7 17.7 1.0
CB A:VAL209 4.7 18.8 1.0
CA A:GLU208 4.8 25.1 1.0
OG A:SER363 4.9 22.5 1.0
O A:ILE210 5.0 16.8 1.0

Reference:

C.B.Sandeep, A.Addlagatta. Crystal Structure of Human Methionine Aminopeptidase (HSMETAP1B) in Complex with An-P2-5H-06 To Be Published.
Page generated: Tue Oct 8 11:46:32 2024

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