Atomistry » Sodium » PDB 2htx-2isp » 2id4
Atomistry »
  Sodium »
    PDB 2htx-2isp »
      2id4 »

Sodium in PDB 2id4: The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.

Enzymatic activity of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.

All present enzymatic activity of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.:
3.4.21.61;

Protein crystallography data

The structure of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor., PDB code: 2id4 was solved by J.L.Wheatley, T.Holyoak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.79 / 1.90
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 112.851, 112.851, 370.165, 90.00, 90.00, 120.00
R / Rfree (%) 17.7 / 20.6

Other elements in 2id4:

The structure of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor. also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor. (pdb code 2id4). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor., PDB code: 2id4:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 2id4

Go back to Sodium Binding Sites List in 2id4
Sodium binding site 1 out of 2 in the The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na907

b:34.0
occ:1.00
O A:HOH942 2.3 29.3 1.0
O A:SER330 2.3 27.2 1.0
O A:THR328 2.4 26.4 1.0
O A:SER333 2.4 26.2 1.0
OG A:SER333 2.6 29.0 1.0
OG1 A:THR335 3.1 27.6 1.0
C A:SER333 3.2 27.0 1.0
C A:THR328 3.4 26.6 1.0
C A:SER330 3.5 27.0 1.0
O A:HOH980 3.6 31.4 1.0
CB A:SER333 3.7 27.1 1.0
CA A:SER333 3.8 27.3 1.0
CE A:MET555 3.8 27.3 1.0
N A:SER330 3.9 27.2 1.0
N A:SER333 3.9 27.0 1.0
N A:THR335 4.0 27.2 1.0
CB A:THR335 4.0 27.2 1.0
C A:ASN329 4.2 26.9 1.0
CA A:SER330 4.2 27.0 1.0
O A:TYR327 4.2 27.8 1.0
CA A:THR328 4.3 26.6 1.0
N A:ILE334 4.3 27.0 1.0
N A:ASN329 4.3 26.8 1.0
CA A:ASN329 4.4 26.8 1.0
C A:ILE334 4.6 26.9 1.0
N A:ILE331 4.6 26.6 1.0
CA A:ILE334 4.6 26.8 1.0
CA A:THR335 4.6 27.1 1.0
O A:ALA354 4.6 28.0 1.0
CB A:SER330 4.6 27.0 1.0
CA A:ILE331 4.8 26.4 1.0
C A:ILE331 4.8 26.1 1.0
O A:ASN329 4.9 27.3 1.0
CB A:ALA354 4.9 27.5 1.0

Sodium binding site 2 out of 2 in 2id4

Go back to Sodium Binding Sites List in 2id4
Sodium binding site 2 out of 2 in the The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The 1.9 A Structure of KEX2 in Complex with An Ac-R-E-R-K-Chloromethyl Ketone Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na907

b:29.4
occ:1.00
O B:HOH912 2.2 24.0 1.0
O B:SER330 2.3 25.4 1.0
O B:SER333 2.3 26.6 1.0
O B:THR328 2.4 27.9 1.0
OG B:SER333 2.4 24.4 1.0
OG1 B:THR335 3.0 27.7 1.0
C B:SER333 3.2 26.7 1.0
C B:THR328 3.5 28.0 1.0
C B:SER330 3.5 26.5 1.0
CB B:SER333 3.6 26.2 1.0
O B:HOH934 3.7 29.0 1.0
CA B:SER333 3.8 26.1 1.0
N B:SER330 3.9 27.5 1.0
N B:SER333 3.9 26.2 1.0
N B:THR335 3.9 27.1 1.0
CE B:MET555 3.9 27.1 1.0
CB B:THR335 4.0 26.8 1.0
O B:TYR327 4.2 29.6 1.0
N B:ILE334 4.2 27.0 1.0
CA B:SER330 4.2 26.8 1.0
C B:ASN329 4.2 28.2 1.0
CA B:THR328 4.3 27.8 1.0
N B:ASN329 4.3 27.9 1.0
CA B:ASN329 4.4 28.2 1.0
C B:ILE334 4.5 27.4 1.0
CA B:ILE334 4.5 27.1 1.0
CA B:THR335 4.5 27.0 1.0
N B:ILE331 4.6 26.3 1.0
O B:ALA354 4.6 28.5 1.0
CB B:SER330 4.6 27.0 1.0
CA B:ILE331 4.8 26.0 1.0
C B:ILE331 4.8 26.3 1.0
O B:ASN329 4.9 28.8 1.0
CB B:ALA354 5.0 27.8 1.0

Reference:

J.L.Wheatley, T.Holyoak. Differential P1 Arginine and Lysine Recognition in the Prototypical Proprotein Convertase KEX2. Proc.Natl.Acad.Sci.Usa V. 104 6626 2007.
ISSN: ISSN 0027-8424
PubMed: 17426142
DOI: 10.1073/PNAS.0701983104
Page generated: Mon Oct 7 02:52:16 2024

Last articles

K in 5FT0
K in 5FIY
K in 5FOG
K in 5FKT
K in 5FKS
K in 5FKQ
K in 5FKR
K in 5FKG
K in 5FKH
K in 5FKF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy