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Sodium in PDB 2huv: Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3

Enzymatic activity of Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3

All present enzymatic activity of Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3:
2.1.1.98;

Protein crystallography data

The structure of Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3, PDB code: 2huv was solved by M.Sugahara, K.Saraboji, S.M.Malathy Sony, M.N.Ponnuswamy, T.S.Kumarevel, 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) 11.99 / 2.10
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 104.731, 104.731, 137.513, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 22.7

Other elements in 2huv:

The structure of Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3 also contains other interesting chemical elements:

Platinum (Pt) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3 (pdb code 2huv). 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 PH0725 From Pyrococcus Horikoshii OT3, PDB code: 2huv:

Sodium binding site 1 out of 1 in 2huv

Go back to Sodium Binding Sites List in 2huv
Sodium binding site 1 out of 1 in the Crystal Structure of PH0725 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 PH0725 From Pyrococcus Horikoshii OT3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na3001

b:40.1
occ:1.00
O A:HOH3125 2.1 30.4 1.0
O A:HOH3002 2.1 19.9 1.0
O B:HOH2007 2.3 25.8 1.0
OH A:TYR117 2.5 28.8 1.0
O B:HOH2008 2.6 22.7 1.0
CZ A:TYR117 3.4 26.8 1.0
CE2 A:TYR117 3.7 25.6 1.0
O B:GLY131 3.8 23.5 1.0
OG B:SER133 3.9 29.1 1.0
O A:ILE127 4.1 24.0 1.0
O A:PHE130 4.2 26.6 1.0
CD1 B:TYR117 4.2 26.0 1.0
O B:HOH2043 4.3 27.9 1.0
CE1 B:TYR117 4.4 25.1 1.0
CB A:PHE130 4.4 23.4 1.0
CB B:PHE130 4.5 24.9 1.0
CE1 A:TYR117 4.5 23.9 1.0
O A:HOH3034 4.5 28.1 1.0
O A:HOH3007 4.6 23.3 1.0
O B:HOH2004 4.6 20.5 1.0
O B:PHE130 4.8 26.9 1.0
C A:PHE130 4.9 26.2 1.0
C B:GLY131 4.9 24.5 1.0
O A:GLY131 5.0 23.7 1.0
CD2 A:TYR117 5.0 23.9 1.0

Reference:

M.Sugahara, N.Kunishima. Crystal Structure of PH0725 From Pyrococcus Horikoshii OT3 To Be Published.
Page generated: Thu Oct 29 04:11:47 2020

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