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Sodium in PDB 1wn2: Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3

Enzymatic activity of Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3

All present enzymatic activity of Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3:
3.1.1.29;

Protein crystallography data

The structure of Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3, PDB code: 1wn2 was solved by K.Shimizu, N.Kunishima, Riken Structural Genomics/Proteomics Initiative(Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.12 / 1.20
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 49.670, 49.670, 85.791, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 21.5

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3 (pdb code 1wn2). 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 Project Id PH1539 From Pyrococcus Horikoshii OT3, PDB code: 1wn2:

Sodium binding site 1 out of 1 in 1wn2

Go back to Sodium Binding Sites List in 1wn2
Sodium binding site 1 out of 1 in the Crystal Structure of Project Id PH1539 From Pyrococcus Horikoshii OT3


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 Project Id PH1539 From Pyrococcus Horikoshii OT3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1001

b:15.0
occ:1.00
O A:GLY89 2.2 13.3 1.0
O A:HOH1174 2.3 22.9 1.0
O A:HOH1020 2.3 15.5 1.0
O A:HOH1045 2.4 20.9 1.0
O A:HOH1047 2.5 15.3 1.0
O A:HOH1056 2.5 14.9 1.0
C A:GLY89 3.4 13.1 1.0
NZ A:LYS23 4.1 11.0 1.0
OG1 A:THR91 4.2 12.6 1.0
CA A:GLY89 4.2 13.4 1.0
O A:HOH1082 4.3 27.7 1.0
N A:LEU90 4.3 12.6 1.0
N A:THR91 4.4 12.1 1.0
O A:HOH1028 4.4 15.3 1.0
O A:HOH1090 4.4 22.5 1.0
CA A:LEU90 4.4 12.6 1.0
O A:HOH1107 4.4 31.2 1.0
O A:HOH1076 4.5 18.1 1.0
OE1 A:GLU92 4.6 11.4 1.0
CE A:LYS23 5.0 10.6 1.0
C A:LEU90 5.0 12.2 1.0

Reference:

K.Shimizu, C.Kuroishi, M.Sugahara, N.Kunishima. Structure of Peptidyl-Trna Hydrolase 2 From Pyrococcus Horikoshii OT3: Insight Into the Functional Role of Its Dimeric State. Acta Crystallogr.,Sect.D V. 64 444 2008.
ISSN: ISSN 0907-4449
PubMed: 18391411
DOI: 10.1107/S0907444908002850
Page generated: Tue Dec 15 05:41:11 2020

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