Atomistry » Magnesium » PDB 1n6k-1ngg » 1ndc
Atomistry »
  Magnesium »
    PDB 1n6k-1ngg »
      1ndc »

Magnesium in PDB 1ndc: X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution

Enzymatic activity of X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution

All present enzymatic activity of X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution:
2.7.4.6;

Protein crystallography data

The structure of X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution, PDB code: 1ndc was solved by J.Cherfils, S.Morera, J.Janin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 16.00 / 2.00
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 79.800, 79.800, 160.600, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / n/a

Magnesium Binding Sites:

The binding sites of Magnesium atom in the X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution (pdb code 1ndc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution, PDB code: 1ndc:

Magnesium binding site 1 out of 1 in 1ndc

Go back to Magnesium Binding Sites List in 1ndc
Magnesium binding site 1 out of 1 in the X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Dtdp and MG2+ at 2 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg161

b:8.0
occ:1.00
 O A:HOH204 1.9 8.8 1.0
O A:HOH243 2.0 7.3 1.0
O A:HOH224 2.0 9.0 1.0
O A:HOH264 2.1 9.0 1.0
O1A A:TYD160 2.1 8.1 1.0
O2B A:TYD160 2.1 7.3 1.0
PA A:TYD160 3.4 7.1 1.0
PB A:TYD160 3.4 6.8 1.0
O3A A:TYD160 3.7 8.8 1.0
OD2 A:ASP125 3.9 18.4 1.0
O A:HOH235 4.2 15.5 1.0
NH1 A:ARG92 4.2 8.8 1.0
O A:HOH249 4.3 18.0 1.0
O1B A:TYD160 4.3 7.4 1.0
OE2 A:GLU58 4.4 14.3 1.0
O A:HOH218 4.4 8.3 1.0
O2A A:TYD160 4.4 9.7 1.0
CG A:ASP125 4.4 10.3 1.0
O A:HOH225 4.4 22.9 1.0
O3B A:TYD160 4.4 9.3 1.0
CB A:ASP125 4.4 8.9 1.0
O A:HOH246 4.4 9.4 1.0
O5' A:TYD160 4.5 4.4 1.0
C5' A:TYD160 4.5 6.2 1.0
NE2 A:HIS59 4.6 5.1 1.0
O A:GLY123 4.7 5.1 1.0
CE1 A:HIS122 4.9 2.0 1.0
CZ A:ARG92 5.0 10.5 1.0

Reference:

J.Cherfils, S.Morera, I.Lascu, M.Veron, J.Janin. X-Ray Structure of Nucleoside Diphosphate Kinase Complexed with Thymidine Diphosphate and MG2+ at 2-A Resolution. Biochemistry V. 33 9062 1994.
ISSN: ISSN 0006-2960
PubMed: 8049207
DOI: 10.1021/BI00197A006
Page generated: Tue Aug 13 09:48:06 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy