Atomistry » Sodium » PDB 1k7e-1l0i » 1khf
Atomistry »
  Sodium »
    PDB 1k7e-1l0i »
      1khf »

Sodium in PDB 1khf: Pepck Complex with Pep

Enzymatic activity of Pepck Complex with Pep

All present enzymatic activity of Pepck Complex with Pep:
4.1.1.32;

Protein crystallography data

The structure of Pepck Complex with Pep, PDB code: 1khf was solved by P.Dunten, C.Belunis, R.Crowther, K.Hollfelder, U.Kammlott, W.Levin, H.Michel, G.B.Ramsey, A.Swain, D.Weber, S.J.Wertheimer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.02
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 45.251, 60.679, 62.032, 88.69, 70.00, 72.54
R / Rfree (%) 18.3 / 24.4

Other elements in 1khf:

The structure of Pepck Complex with Pep also contains other interesting chemical elements:

Manganese (Mn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Pepck Complex with Pep (pdb code 1khf). 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 Pepck Complex with Pep, PDB code: 1khf:

Sodium binding site 1 out of 1 in 1khf

Go back to Sodium Binding Sites List in 1khf
Sodium binding site 1 out of 1 in the Pepck Complex with Pep


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pepck Complex with Pep within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na702

b:20.3
occ:1.00
O A:HOH813 2.7 16.2 1.0
O2 A:PEP703 2.8 15.4 1.0
O1P A:PEP703 2.9 19.2 1.0
O A:HOH861 3.0 15.4 1.0
O1 A:PEP703 3.1 13.8 1.0
P A:PEP703 3.4 19.0 1.0
ND2 A:ASN403 3.7 11.9 1.0
OD1 A:ASN403 3.7 9.3 1.0
C1 A:PEP703 3.8 15.2 1.0
CG A:ASN403 3.9 8.4 1.0
CB A:ALA86 3.9 11.2 1.0
C2 A:PEP703 3.9 12.1 1.0
NH2 A:ARG405 4.1 13.7 1.0
N A:ARG87 4.2 11.3 1.0
CB A:ARG87 4.3 13.3 1.0
NH2 A:ARG87 4.3 3.8 1.0
O2P A:PEP703 4.5 16.6 1.0
O A:ARG87 4.5 10.1 1.0
O A:HOH819 4.6 15.4 1.0
NE A:ARG87 4.6 8.0 1.0
CA A:ALA86 4.6 12.5 1.0
O A:HOH860 4.6 16.6 1.0
CZ A:ARG87 4.7 8.5 1.0
O3P A:PEP703 4.8 18.3 1.0
CA A:ARG87 4.8 10.8 1.0
C A:ALA86 4.9 11.9 1.0
O2' A:PEP703 5.0 15.1 1.0

Reference:

P.Dunten, C.Belunis, R.Crowther, K.Hollfelder, U.Kammlott, W.Levin, H.Michel, G.B.Ramsey, A.Swain, D.Weber, S.J.Wertheimer. Crystal Structure of Human Cytosolic Phosphoenolpyruvate Carboxykinase Reveals A New Gtp-Binding Site. J.Mol.Biol. V. 316 257 2002.
ISSN: ISSN 0022-2836
PubMed: 11851336
DOI: 10.1006/JMBI.2001.5364
Page generated: Tue Dec 15 05:28:27 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